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stupid question about release names
by Jeff Hammond 22 Feb '13

22 Feb '13

I'm sorry for being a moron, but I cannot figure out which of these is the most recent release of the 1.5 branch: 1.5/ 20-Nov-2012 15:48 - 1.5a1/ 20-Nov-2012 15:52 - 1.5a2/ 20-Nov-2012 15:52 - 1.5b1/ 20-Nov-2012 15:54 - 1.5b2/ 20-Nov-2012 15:54 - 1.5rc1/ 23-Nov-2012 08:36 - 1.5rc2/ 20-Nov-2012 15:56 - 1.5rc3/ 20-Nov-2012 15:57 I had hoped to use the time-stamp but that doesn't seem to help so much. Is a=alpha, b=beta, rc=release candidate and therefore "1.5" is the latest? And if there was a p=patch, that would be newer than "1.5"? Again, I know this is a dumb question. Thanks for your tolerance. Best, Jeff -- Jeff Hammond Argonne Leadership Computing Facility University of Chicago Computation Institute jhammond(a)alcf.anl.gov / (630) 252-5381 http://www.linkedin.com/in/jeffhammond https://wiki.alcf.anl.gov/parts/index.php/User:Jhammond

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Re: [mpich-discuss] mpiexec: ignore exit codes
by Yauheni Zelenko 22 Feb '13

22 Feb '13

Hi, Silvan! I had similar problem. As workaround you need to change next line in src/pm/hydra/pm/pmiserv/pmiserv_cb.c from if (!WIFEXITED(proxy->exit_status[i]) || WEXITSTATUS(proxy->exit_status[i])) { to if (!WIFEXITED(proxy->exit_status[i]) /* || WEXITSTATUS(proxy->exit_status[i]) */) { I already suggested to introduce Hydra command line option which will allow to ignore non-zero exit codes. Eugene. ________________________________________ From: discuss-bounces(a)mpich.org [discuss-bounces(a)mpich.org] On Behalf Of Silvan Brändli [silvan.braendli(a)tuhh.de] Sent: Friday, February 22, 2013 5:46 AM To: discuss(a)mpich.org Subject: [mpich-discuss] mpiexec: ignore exit codes Dear all, one of my spawned processes returns Exit Code 1 when finishing, causing mpiexec to abort (see below). Despite that I would like to continue running my programs. Is there a way to make mpiexec ignore the exit codes? Best regards Silvan Brändli =================================================================================== = BAD TERMINATION OF ONE OF YOUR APPLICATION PROCESSES = EXIT CODE: 1 = CLEANING UP REMAINING PROCESSES = YOU CAN IGNORE THE BELOW CLEANUP MESSAGES =================================================================================== [proxy:0:0@leibniz] HYD_pmcd_pmip_control_cmd_cb (./pm/pmiserv/pmip_cb.c:883): assert (!closed) failed [proxy:0:0@leibniz] HYDT_dmxu_poll_wait_for_event (./tools/demux/demux_poll.c:77): callback returned error status [proxy:0:0@leibniz] main (./pm/pmiserv/pmip.c:210): demux engine error waiting for event [proxy:2:0@leibniz] HYD_pmcd_pmip_control_cmd_cb (./pm/pmiserv/pmip_cb.c:883): assert (!closed) failed [proxy:2:0@leibniz] HYDT_dmxu_poll_wait_for_event (./tools/demux/demux_poll.c:77): callback returned error status [proxy:2:0@leibniz] main (./pm/pmiserv/pmip.c:210): demux engine error waiting for event [mpiexec@leibniz] HYDT_bscu_wait_for_completion (./tools/bootstrap/utils/bscu_wait.c:76): one of the processes terminated badly; aborting [mpiexec@leibniz] HYDT_bsci_wait_for_completion (./tools/bootstrap/src/bsci_wait.c:23): launcher returned error waiting for completion [mpiexec@leibniz] HYD_pmci_wait_for_completion (./pm/pmiserv/pmiserv_pmci.c:216): launcher returned error waiting for completion [mpiexec@leibniz] main (./ui/mpich/mpiexec.c:325): process manager error waiting for completion -- Dipl.-Ing. Silvan Brändli Numerische Strukturanalyse mit Anwendungen in der Schiffstechnik (M-10) Technische Universität Hamburg-Harburg Schwarzenbergstraße 95c 21073 Hamburg Tel. : +49 (0)40 42878 - 6187 Fax. : +49 (0)40 42878 - 6090 e-mail: silvan.braendli(a)tuhh.de www : http://www.tuhh.de/skf 5th GACM Colloquium on Computational Mechanics http://www.tu-harburg.de/gacm2013 _______________________________________________ discuss mailing list discuss(a)mpich.org To manage subscription options or unsubscribe: https://lists.mpich.org/mailman/listinfo/discuss

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MPE profiling question
by Yusong Wang - NOAA Affiliate 22 Feb '13

22 Feb '13

Hi, I am trying to use MPE to do a profiling for all the MPI statements in a complex Fortran code with MPICH2-1.4.1 on 1008 cores . The code was compiled with ... MPICH2-1.4.1/bin/mpif90 -mpe=mpilog ... While during converting from clog to slog file with the clog2TOslog2 command, millions of lines like below appeared on the screen and it was out of some time limit eventually. It looks like some events should not be recorded. This also leads to extreme slowness and generated a 177GB profile for the code to be studied. What is the possible cause of this? How to solve the problem? Some clog2print output can be found at the end. State{ Primitive[ infobox[ TimeBBox(30.777848601341248,30.777848601341248) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.77785, 588) (30.77785, 588) ] bsize=32 } State{ Primitive[ infobox[ TimeBBox(30.777848601341248,30.777848601341248) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.77785, 588) (30.77785, 588) ] bsize=32 } Drawable.Order: WARNING! Equal Drawables? State{ Primitive[ infobox[ TimeBBox(30.7866690158844,30.7866690158844) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.786669, 490) (30.786669, 490) ] bsize=32 } State{ Primitive[ infobox[ TimeBBox(30.7866690158844,30.7866690158844) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.786669, 490) (30.786669, 490) ] bsize=32 } Drawable.Order: WARNING! Equal Drawables? State{ Primitive[ infobox[ TimeBBox(30.78674340248108,30.78674340248108) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.786743, 492) (30.786743, 492) ] bsize=32 } State{ Primitive[ infobox[ TimeBBox(30.78674340248108,30.78674340248108) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.786743, 492) (30.786743, 492) ] bsize=32 } Drawable.Order: WARNING! Equal Drawables? State{ Primitive[ infobox[ TimeBBox(30.786930561065674,30.786930561065674) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.78693, 482) (30.78693, 482) ] bsize=32 } State{ Primitive[ infobox[ TimeBBox(30.786930561065674,30.786930561065674) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.78693, 482) (30.78693, 482) ] bsize=32 } Drawable.Order: WARNING! Equal Drawables? State{ Primitive[ infobox[ TimeBBox(30.78696846961975,30.78696846961975) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.786968, 481) (30.786968, 481) ] bsize=32 } State{ Primitive[ infobox[ TimeBBox(30.78696846961975,30.78696846961975) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.786968, 481) (30.786968, 481) ] bsize=32 } Drawable.Order: WARNING! Equal Drawables? State{ Primitive[ infobox[ TimeBBox(30.777848601341248,30.777848601341248) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.77785, 588) (30.77785, 588) ] bsize=32 } State{ Primitive[ infobox[ TimeBBox(30.777848601341248,30.777848601341248) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.77785, 588) (30.77785, 588) ] bsize=32 } Drawable.Order: WARNING! Equal Drawables? State{ Primitive[ infobox[ TimeBBox(30.7866690158844,30.7866690158844) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.786669, 490) (30.786669, 490) ] bsize=32 } State{ Primitive[ infobox[ TimeBBox(30.7866690158844,30.7866690158844) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.786669, 490) (30.786669, 490) ] bsize=32 } Drawable.Order: WARNING! Equal Drawables? State{ Primitive[ infobox[ TimeBBox(30.78674340248108,30.78674340248108) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.786743, 492) (30.786743, 492) ] bsize=32 } State{ Primitive[ infobox[ TimeBBox(30.78674340248108,30.78674340248108) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.786743, 492) (30.786743, 492) ] bsize=32 } Drawable.Order: WARNING! Equal Drawables? State{ Primitive[ infobox[ TimeBBox(30.786930561065674,30.786930561065674) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.78693, 482) (30.78693, 482) ] bsize=32 } State{ Primitive[ infobox[ TimeBBox(30.786930561065674,30.786930561065674) Category=ObjDef{ evts=(210,211), Category[ index=106, name=UnknownType-106, topo=State, color=(153,204,255,255,true), isUsed=true, width=1, vis=true, search=true, ratios=0.0,0.0, count=0 ] }: ] (30.78693, 482) (30.78693, 482) ] bsize=32 } Drawable.Order: WARNING! Equal Drawables? Some outputs from clog2print fe7>clog2print NEMS.x.clog2 | more GUI_LIBDIR is set. GUI_LIBDIR = /home/Yusong.Wang/Tools/MPE2/lib CLOG-02.44 is_big_endian=true is_finalzed=true block_size=65536 num_buffered_blocks=128 max_comm_world_size=1008 max_thread_count=1 known_eventID_start=0 user_eventID_start=600 known_solo_eventID_start=-10 user_solo_eventID_start=5000 known_stateID_count=300 user_stateID_count=0 known_solo_eventID_count=2 user_solo_eventID_count=0 commtable_fptr=189927785472 RecHeader[ time=-0.0014635324478149414, icomm=0, rank=286, thread=0, rectype=11 ] RecTshift[ timeshift=0.0014914274215698242 ] RecHeader[ time=-0.0014625787734985352, icomm=0, rank=286, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=286, wrank=286, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0014625787734985352, icomm=0, rank=286, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=315, rank=0, wrank=286, gcomm=1187486374-1.36148902997195E9-r36i1n3 RecHeader[ time=-0.001454472541809082, icomm=0, rank=278, thread=0, rectype=11 ] RecTshift[ timeshift=0.0014923810958862305 ] RecHeader[ time=-0.0014532804489135742, icomm=0, rank=278, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=278, wrank=278, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0014532804489135742, icomm=0, rank=278, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=307, rank=0, wrank=278, gcomm=1259602162-1.361489029971928E9-r36i1n3 RecHeader[ time=-0.0014530420303344727, icomm=0, rank=283, thread=0, rectype=11 ] RecTshift[ timeshift=0.001490950584411621 ] RecHeader[ time=-0.001452803611755371, icomm=0, rank=279, thread=0, rectype=11 ] RecTshift[ timeshift=0.0014919042587280273 ] RecHeader[ time=-0.0014520883560180664, icomm=0, rank=283, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=283, wrank=283, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0014520883560180664, icomm=0, rank=283, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=312, rank=0, wrank=283, gcomm=2019836162-1.361489029971952E9-r36i1n3 RecHeader[ time=-0.0014518499374389648, icomm=0, rank=279, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=279, wrank=279, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0014518499374389648, icomm=0, rank=279, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=308, rank=0, wrank=279, gcomm=982152232-1.361489029971961E9-r36i1n3 RecHeader[ time=-0.0014477968215942383, icomm=0, rank=276, thread=0, rectype=11 ] RecTshift[ timeshift=0.0014928579330444336 ] RecHeader[ time=-0.0014477968215942383, icomm=0, rank=276, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=276, wrank=276, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0014477968215942383, icomm=0, rank=276, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=305, rank=0, wrank=276, gcomm=1814502021-1.361489029971937E9-r36i1n3 RecHeader[ time=-0.001446366310119629, icomm=0, rank=277, thread=0, rectype=11 ] RecTshift[ timeshift=0.0014933347702026367 ] RecHeader[ time=-0.0014454126358032227, icomm=0, rank=277, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=277, wrank=277, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0014454126358032227, icomm=0, rank=277, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=306, rank=0, wrank=277, gcomm=1537052091-1.361489029971946E9-r36i1n3 RecHeader[ time=-0.0014358758926391602, icomm=0, rank=287, thread=0, rectype=11 ] RecTshift[ timeshift=0.001490950584411621 ] RecHeader[ time=-0.001434922218322754, icomm=0, rank=287, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=287, wrank=287, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.001434922218322754, icomm=0, rank=287, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=316, rank=0, wrank=287, gcomm=910036444-1.361489029971966E9-r36i1n3 RecHeader[ time=-0.0014303922653198242, icomm=0, rank=285, thread=0, rectype=11 ] RecTshift[ timeshift=0.0014914274215698242 ] RecHeader[ time=-0.0014303922653198242, icomm=0, rank=285, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=285, wrank=285, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0014303922653198242, icomm=0, rank=285, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=314, rank=0, wrank=285, gcomm=1464936303-1.361489029971933E9-r36i1n3 RecHeader[ time=-0.0014175176620483398, icomm=0, rank=282, thread=0, rectype=11 ] RecTshift[ timeshift=0.001490473747253418 ] RecHeader[ time=-0.0014165639877319336, icomm=0, rank=282, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=282, wrank=282, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0014165639877319336, icomm=0, rank=282, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=311, rank=0, wrank=282, gcomm=149802444-1.361489029971928E9-r36i1n3 RecHeader[ time=-0.0014106035232543945, icomm=0, rank=281, thread=0, rectype=11 ] RecTshift[ timeshift=0.001490473747253418 ] RecHeader[ time=-0.0014106035232543945, icomm=0, rank=281, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=281, wrank=281, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0014106035232543945, icomm=0, rank=281, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=310, rank=0, wrank=281, gcomm=427252373-1.361489029971947E9-r36i1n3 RecHeader[ time=-0.0013779401779174805, icomm=0, rank=284, thread=0, rectype=11 ] RecTshift[ timeshift=0.001490950584411621 ] RecHeader[ time=-0.0013769865036010742, icomm=0, rank=284, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=284, wrank=284, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0013769865036010742, icomm=0, rank=284, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=313, rank=0, wrank=284, gcomm=1742386233-1.361489029971935E9-r36i1n3 RecHeader[ time=-0.0013734102249145508, icomm=0, rank=280, thread=0, rectype=11 ] RecTshift[ timeshift=0.001490473747253418 ] RecHeader[ time=-0.0013724565505981445, icomm=0, rank=280, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=280, wrank=280, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0013715028762817383, icomm=0, rank=280, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=309, rank=0, wrank=280, gcomm=704702303-1.361489029971955E9-r36i1n3 RecHeader[ time=-0.0012382268905639648, icomm=0, rank=380, thread=0, rectype=11 ] RecTshift[ timeshift=0.001263260841369629 ] RecHeader[ time=-0.0012382268905639648, icomm=0, rank=380, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=380, wrank=380, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0012382268905639648, icomm=0, rank=380, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=409, rank=0, wrank=380, gcomm=646419710-1.361489029982929E9-r36i1n11 RecHeader[ time=-0.001236557960510254, icomm=0, rank=381, thread=0, rectype=11 ] RecTshift[ timeshift=0.001263737678527832 ] RecHeader[ time=-0.001236557960510254, icomm=0, rank=381, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=381, wrank=381, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0012356042861938477, icomm=0, rank=381, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=410, rank=0, wrank=381, gcomm=368969781-1.361489029982935E9-r36i1n11 RecHeader[ time=-0.001231074333190918, icomm=0, rank=379, thread=0, rectype=11 ] RecTshift[ timeshift=0.0012642145156860352 ] RecHeader[ time=-0.0012301206588745117, icomm=0, rank=379, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=379, wrank=379, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0012301206588745117, icomm=0, rank=379, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=408, rank=0, wrank=379, gcomm=923869640-1.361489029982941E9-r36i1n11 RecHeader[ time=-0.001221776008605957, icomm=0, rank=376, thread=0, rectype=11 ] RecTshift[ timeshift=0.0012627840042114258 ] RecHeader[ time=-0.001221776008605957, icomm=0, rank=376, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=376, wrank=376, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.001221776008605957, icomm=0, rank=376, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=405, rank=0, wrank=376, gcomm=1756219428-1.361489029982958E9-r36i1n11 RecHeader[ time=-0.0012112855911254883, icomm=0, rank=373, thread=0, rectype=11 ] RecTshift[ timeshift=0.0012623071670532227 ] RecHeader[ time=-0.001210331916809082, icomm=0, rank=373, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=373, wrank=373, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.001210331916809082, icomm=0, rank=373, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=402, rank=0, wrank=373, gcomm=441085569-1.361489029982914E9-r36i1n11 RecHeader[ time=-0.0012046098709106445, icomm=0, rank=383, thread=0, rectype=11 ] RecTshift[ timeshift=0.0012627840042114258 ] RecHeader[ time=-0.0012036561965942383, icomm=0, rank=383, thread=0, rectype=9 ] RecComm[ etype=CommWorldCreate, icomm=0, rank=383, wrank=383, gcomm=369972154-1.361489029949814E9-r6i2n0 RecHeader[ time=-0.0012036561965942383, icomm=0, rank=383, thread=0, rectype=9 ] RecComm[ etype=CommSelfCreate, icomm=412, rank=0, wrank=383, gcomm=1961553570-1.361489029982915E9-r36i1n11 RecHeader[ time=-0.0011996030807495117, icomm=0, rank=382, thread=0, rectype=11 ] RecTshift[ timeshift=0.001261591911315918 ] Thanks, Yusong

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mpiexec: ignore exit codes
by Silvan Brändli 22 Feb '13

22 Feb '13

Dear all, one of my spawned processes returns Exit Code 1 when finishing, causing mpiexec to abort (see below). Despite that I would like to continue running my programs. Is there a way to make mpiexec ignore the exit codes? Best regards Silvan Brï¿½ndli =================================================================================== = BAD TERMINATION OF ONE OF YOUR APPLICATION PROCESSES = EXIT CODE: 1 = CLEANING UP REMAINING PROCESSES = YOU CAN IGNORE THE BELOW CLEANUP MESSAGES =================================================================================== [proxy:0:0@leibniz] HYD_pmcd_pmip_control_cmd_cb (./pm/pmiserv/pmip_cb.c:883): assert (!closed) failed [proxy:0:0@leibniz] HYDT_dmxu_poll_wait_for_event (./tools/demux/demux_poll.c:77): callback returned error status [proxy:0:0@leibniz] main (./pm/pmiserv/pmip.c:210): demux engine error waiting for event [proxy:2:0@leibniz] HYD_pmcd_pmip_control_cmd_cb (./pm/pmiserv/pmip_cb.c:883): assert (!closed) failed [proxy:2:0@leibniz] HYDT_dmxu_poll_wait_for_event (./tools/demux/demux_poll.c:77): callback returned error status [proxy:2:0@leibniz] main (./pm/pmiserv/pmip.c:210): demux engine error waiting for event [mpiexec@leibniz] HYDT_bscu_wait_for_completion (./tools/bootstrap/utils/bscu_wait.c:76): one of the processes terminated badly; aborting [mpiexec@leibniz] HYDT_bsci_wait_for_completion (./tools/bootstrap/src/bsci_wait.c:23): launcher returned error waiting for completion [mpiexec@leibniz] HYD_pmci_wait_for_completion (./pm/pmiserv/pmiserv_pmci.c:216): launcher returned error waiting for completion [mpiexec@leibniz] main (./ui/mpich/mpiexec.c:325): process manager error waiting for completion -- Dipl.-Ing. Silvan Brï¿½ndli Numerische Strukturanalyse mit Anwendungen in der Schiffstechnik (M-10) Technische Universitï¿½t Hamburg-Harburg Schwarzenbergstraï¿½e 95c 21073 Hamburg Tel. : +49 (0)40 42878 - 6187 Fax. : +49 (0)40 42878 - 6090 e-mail: silvan.braendli(a)tuhh.de www : http://www.tuhh.de/skf 5th GACM Colloquium on Computational Mechanics http://www.tu-harburg.de/gacm2013

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windows library search paths and mpich
by Burlen Loring 21 Feb '13

21 Feb '13

I've encountered some issues with running my app using mpich2 1.4.1 on windows. Win7 64, 32bit app built with vc++2010 express with 32bit mpich2 binary install of a couple days ago. Different version of OpenGL are found when I invoke the program with and without mpiexec. with mpiexec the wrong one is used seriously crippling my rendering capabilities. This system has two graphics devices, an ati radeon and intel hd4000 bundled with the cpu. It is possible to hot switch between them, although to simplify things I've disabled the ati for now and am using hd4000. All the OpenGL libraries are system installed libraries (not in current dir or PATH) so I would have thought that when run under mpich they would be located the same as when not. Any idea why system library search is different with mpich and what may be done about it? Thanks Burlen

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Re: [mpich-discuss] MPI_WIN_LOCK and MPI_MODE_NOCHECK assert
by Jim Dinan 21 Feb '13

21 Feb '13

Hi Jaric, In current and previous releases of MPICH, MPI_MODE_NOCHECK was only used to optimize active target communication. As part of the MPI-3 work, we've also added a MPI_MODE_NOCHECK optimization to passive target communication. This feature should hopefully make it out to our git repo this week and be included in the in the next release. MPI_MODE_NOCHECK essentially asserts that the epoch can begin immediately at the target. If you are using exclusive locks, this means that the lock is uncontended. If you are using shared locks, this means that the lock is uncontended, or that all other processes are also using shared lock. In terms of the implementation for passive target, MODE_NOCHECK allows us to piggyback the lock request on the first RMA operation, since the user has asserted that the lock request will succeed immediately. Best, ~Jim. On 2/20/13 9:11 PM, Jaroslaw Zola wrote: > I have a question regarding implementation of the MPI_MODE_NOCHECK assertion > for MPI_WIN_LOCK. Is current mpich implementation taking advantage of this > hint? Also, according to the standard: > > MPI_MODE_NOCHECK - no other process holds, or will attempt to acquire, > a conflicting lock, while the caller holds the window lock. This is useful when > mutual exclusion is achieved by other means, but the coherence operations that > may be attached to the lock and unlock calls are still required. > > Are two concurrent locks from two different MPI processes followed by MPI_GET > (i.e. given window is not modified but read only) considered conflicting? > > Thanks! > > - Jaric > > > > _______________________________________________ > discuss mailing list discuss(a)mpich.org > To manage subscription options or unsubscribe: > https://lists.mpich.org/mailman/listinfo/discuss >

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Re: [mpich-discuss] problem installing mpich2-1.2.1p1 in cygwin
by Jayesh Krishna 21 Feb '13

21 Feb '13

Hi, Can you try the latest version of MPICH2 (http://www.mpich.org/?s=downloads)? Regards, Jayesh ----- Original Message ----- From: "Angelo Paone" <angelo.paone1(a)gmail.com> To: discuss(a)mpich.org Sent: Thursday, February 21, 2013 3:43:22 AM Subject: [mpich-discuss] problem installing mpich2-1.2.1p1 in cygwin I download the mpich2-1.2.1p1.tar.gz package, unzip and mkdir /home/bob/mpich2-1.2.1p1 then I mkdir /home/bob/mpich2-1.2.1p1-install then I run ./configure --prefix=/home/bob/mpich2-1.2.1-install --exec-prefix=/usr/local/lib/pkgconfig --enable-fast=all, 03 THE OUTPUT IS FOLLOWING: configure: WARNING: you should use --build, --host, --target Configuring MPICH2 version 1.2.1p1 with '--prefix=/home/bob/mpich2-1.2.1-install' '--exec-prefix=/usr/local/lib/pkgconfig' '--enable-fast=all,' '03' 'build_alias=03' 'host_alias=03' 'target_alias=03' Running on system: CYGWIN_NT-6.1 PC 1.7.17(0.262/5/3) 2012-10-19 14:39 i686 Cygwin Executing mpich2prereq in /home/bob/mpich2-1.2.1p1/src/mpid/ch3 with Executing mpich2prereq in /home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis sourcing /home/bob/mpich2-1.2.1p1/src/pm/mpd/mpich2prereq sourcing /home/bob/mpich2-1.2.1p1/src/pm/hydra/mpich2prereq sourcing /home/bob/mpich2-1.2.1p1/src/pm/gforker/mpich2prereq sourcing /home/bob/mpich2-1.2.1p1/src/pm/mpd/setup_pm checking for 03-gcc... no checking for gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E checking whether the compiler defines __func__... yes checking whether the compiler defines __FUNC__... no checking whether the compiler sets __FUNCTION__... yes checking whether C compiler accepts option -O2... yes checking whether routines compiled with -O2 can be linked with ones compiled without -O2... yes checking for type of weak symbol alias support... pragma weak does not work outside of a file no checking whether __attribute__ ((weak)) allowed... yes checking whether __attribute ((weak_import)) allowed... yes checking for 03-g77... no checking for 03-xlf... no checking for 03-f77... no checking for 03-frt... no checking for 03-pgf77... no checking for 03-cf77... no checking for 03-fort77... no checking for 03-fl32... no checking for 03-af77... no checking for 03-xlf90... no checking for 03-f90... no checking for 03-pgf90... no checking for 03-pghpf... no checking for 03-epcf90... no checking for 03-gfortran... no checking for 03-g95... no checking for 03-xlf95... no checking for 03-f95... no checking for 03-fort... no checking for 03-ifort... no checking for 03-ifc... no checking for 03-efc... no checking for 03-pgf95... no checking for 03-lf95... no checking for 03-ftn... no checking for g77... g77 checking whether we are using the GNU Fortran 77 compiler... yes checking whether g77 accepts -g... yes checking whether Fortran 77 compiler accepts option -O2... yes checking whether routines compiled with -O2 can be linked with ones compiled without -O2... yes checking how to get verbose linking output from g77... -v checking for Fortran 77 libraries of g77... -L/usr/lib/gcc/i686-pc-cygwin/3.4.4 -L/usr/lib/gcc/i686-pc-cygwin/3.4.4/../../.. -lfrtbegin -lg2c -lcygwin -luser32 -lkernel32 -ladvapi32 -lshell32 checking whether g77 accepts the FLIBS found by autoconf... yes checking whether C can link with -L/usr/lib/gcc/i686-pc-cygwin/3.4.4 -L/usr/lib/gcc/i686-pc-cygwin/3.4.4/../../.. -lfrtbegin -lg2c -lcygwin -luser32 -lkernel32 -ladvapi32 -lshell32... yes checking for linker for Fortran main programs... 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VPATH checking whether make sets CFLAGS... yes checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes 16 checking assert.h usability... yes checking assert.h presence... yes checking for assert.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking for string.h... 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(cached) yes checking arpa/inet.h usability... yes checking arpa/inet.h presence... yes checking for arpa/inet.h... yes checking sys/socket.h usability... yes checking sys/socket.h presence... yes checking for sys/socket.h... yes checking for net/if.h... yes checking for pid_t... yes checking for inet_pton... yes checking for gethostname... yes checking whether gethostname needs a declaration... no checking for CFUUIDCreate... no checking for uuid_generate... no checking for time... yes checking whether CPP accepts variable length argument lists... yes checking whether byte ordering is bigendian... no checking whether we can use struct ifconf... yes checking size of int... 4 checking size of long... 4 checking size of long long... 8 checking size of void *... 4 configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating util/Makefile config.status: creating util/shm/Makefile config.status: creating util/shmbase/Makefile config.status: creating channels/Makefile config.status: creating util/ftb/Makefile config.status: creating localdefs config.status: creating include/mpid_thread.h config.status: creating include/mpidi_ch3_conf.h config.status: include/mpidi_ch3_conf.h is unchanged config.status: executing default-1 commands copying ./../common/thread/mpid_thread_mpe.c to src/mpid_thread.c === configuring in channels/nemesis (/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis) configure: running /bin/sh ./configure --disable-option-checking '--prefix=/home/bob/mpich2-1.2.1-install' '--exec-prefix=/usr/local/lib/pkgconfig' '--enable-fast=all,' '03' 'build_alias=03' 'host_alias=03' 'target_alias=03' '--disable-checkerrors' '--with-atomic-primitives=auto_allow_emulation' 'CC=gcc' 'CFLAGS= -DNDEBUG -O2' 'LDFLAGS= -lrt' 'LIBS= -lpthread' 'CPPFLAGS= -I/home/bob/mpich2-1.2.1p1/src/openpa/src -I/home/bob/mpich2-1.2.1p1/src/openpa/src -DUSE_PROCESS_LOCKS' --cache-file=/dev/null --srcdir=. configure: WARNING: you should use --build, --host, --target RUNNING CONFIGURE FOR THE NEMESIS CHANNEL checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... yes checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for inline... inline checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for pid_t... yes checking for net/if.h... yes checking assert.h usability... yes checking assert.h presence... yes checking for assert.h... yes checking netdb.h usability... yes checking netdb.h presence... yes checking for netdb.h... yes checking for unistd.h... (cached) yes checking sched.h usability... yes checking sched.h presence... yes checking for sched.h... yes checking sys/mman.h usability... yes checking sys/mman.h presence... yes checking for sys/mman.h... yes checking sys/ioctl.h usability... yes checking sys/ioctl.h presence... yes checking for sys/ioctl.h... yes checking sys/socket.h usability... yes checking sys/socket.h presence... yes checking for sys/socket.h... yes checking sys/sockio.h usability... no checking sys/sockio.h presence... no checking for sys/sockio.h... no checking for sys/types.h... (cached) yes checking errno.h usability... yes checking errno.h presence... yes checking for errno.h... yes checking sys/ipc.h usability... yes checking sys/ipc.h presence... yes checking for sys/ipc.h... yes checking sys/shm.h usability... yes checking sys/shm.h presence... yes checking for sys/shm.h... yes checking for netinet/in.h... yes checking for mkstemp... yes checking for rand... yes checking for srand... yes checking for OpenPA atomic primitive availability... yes checking for mmap... yes checking for munmap... yes configure: Using a memory-mapped file for shared memory checking whether struct hostent contains h_addr_list... yes checking whether we can use struct ifconf... yes checking knem_io.h usability... no checking knem_io.h presence... no checking for knem_io.h... no configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating nemesis/Makefile config.status: creating nemesis/src/Makefile config.status: creating nemesis/utils/Makefile config.status: creating nemesis/utils/replacements/Makefile config.status: creating nemesis/utils/monitor/Makefile config.status: creating nemesis/netmod/Makefile config.status: creating nemesis/netmod/elan/Makefile config.status: creating nemesis/netmod/gm/Makefile config.status: creating nemesis/netmod/mx/Makefile config.status: creating nemesis/netmod/tcp/Makefile config.status: creating nemesis/netmod/ib/Makefile config.status: creating nemesis/netmod/psm/Makefile config.status: creating nemesis/netmod/newmad/Makefile config.status: creating nemesis/netmod/none/Makefile config.status: creating localdefs config.status: creating nemesis/include/mpid_nem_net_module_defs.h config.status: creating nemesis/src/mpid_nem_net_array.c config.status: creating include/mpidi_ch3i_nemesis_conf.h config.status: include/mpidi_ch3i_nemesis_conf.h is unchanged configure: configuring subsystem in src/mpid/common/locks configure: WARNING: you should use --build, --host, --target configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives RUNNING CONFIGURE FOR LOCKS checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... yes checking for ar... ar checking for ranlib... ranlib checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for yield... no checking for sched_yield... yes checking for usleep... yes checking for sleep... yes checking for select... yes checking for mutex_init... no checking for compare_and_swap... no checking for pthread_mutexattr_init... yes checking for pthread_mutexattr_setpshared... yes checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking pthread.h usability... yes checking pthread.h presence... yes checking for pthread.h... yes checking sched.h usability... yes checking sched.h presence... yes checking for sched.h... yes checking for inline... inline checking for working volatile... yes checking for an ANSI C-conforming const... yes configure: creating ./config.status config.status: creating Makefile config.status: creating mpid_locksconf.h config.status: mpid_locksconf.h is unchanged configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives configure: configuring subsystem in src/mpid/common/locks configure: WARNING: you should use --build, --host, --target configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives RUNNING CONFIGURE FOR LOCKS checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... yes checking for ar... ar checking for ranlib... ranlib checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for yield... no checking for sched_yield... yes checking for usleep... yes checking for sleep... yes checking for select... yes checking for mutex_init... no checking for compare_and_swap... no checking for pthread_mutexattr_init... yes checking for pthread_mutexattr_setpshared... yes checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking pthread.h usability... yes checking pthread.h presence... yes checking for pthread.h... yes checking sched.h usability... yes checking sched.h presence... yes checking for sched.h... yes checking for inline... inline checking for working volatile... yes checking for an ANSI C-conforming const... yes configure: creating ./config.status config.status: creating Makefile config.status: creating mpid_locksconf.h config.status: mpid_locksconf.h is unchanged configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives configure: configuring subsystem in src/mpi/romio configure: WARNING: you should use --build, --host, --target configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives Configuring with args --prefix=/home/bob/mpich2-1.2.1-install --exec-prefix=/usr/local/lib/pkgconfig --enable-fast=all, 03 build_alias=03 host_alias=03 target_alias=03 --disable-checkerrors --with-atomic-primitives=auto_allow_emulation checking for architecture... i686 configure: WARNING: Unknown architecture ... proceeding anyway ROMIO home directory is /home/bob/mpich2-1.2.1p1/src/mpi/romio checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for 03-g77... g77 checking whether we are using the GNU Fortran 77 compiler... yes checking whether g77 accepts -g... yes checking for memalign... yes checking Fortran external names Fortran externals are lower case and have two trailing underscores checking for inline... inline checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for unistd.h... (cached) yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking malloc.h usability... yes checking malloc.h presence... yes checking for malloc.h... yes checking stddef.h usability... yes checking stddef.h presence... yes checking for stddef.h... yes checking for sys/types.h... (cached) yes checking for u_char... yes checking for u_short... yes checking for u_int... yes checking for u_long... yes checking sys/attr.h usability... no checking sys/attr.h presence... no checking for sys/attr.h... no checking size of int... 4 checking size of void *... 4 checking for int large enough for pointers... yes checking size of long long... 8 checking for extension for Fortran 90 programs... f90 checking for Fortran 90 KIND parameter for 8-byte integers... 8 checking that we can use integer*8 to declare MPI_DISPLACMENT_CURRENT... yes Overriding Array test for MPICH2 checking for weak symbol support... pragma weak checking that weak symbols are visible to other files... no no checking whether struct flock compatible with MPI_Offset... yes checking for pvfs2-config... notfound checking configured file systems... testfs ufs nfs configure: WARNING: File locks may not work with NFS. See the Installation and users manual for instructions on testing and if necessary fixing this checking for library containing aio_write... no checking for library containing pthread_create... none required checking for library containing aio_write... (cached) no checking whether aio routines can be used... no checking for obsolete two-argument aio_write... no checking for obsolete two-argument aio_suspend... no checking for aio_fildes member of aiocb structure... no checking for aio_whence member of aiocb structure... no checking for aio_handle member of aiocb structure... no checking for aio_reqprio member of aiocb structure... no checking for aio_sigevent member of aiocb structure... no checking sys/vfs.h usability... yes checking sys/vfs.h presence... yes checking for sys/vfs.h... yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking sys/mount.h usability... yes checking sys/mount.h presence... yes checking for sys/mount.h... yes checking sys/statvfs.h usability... yes checking sys/statvfs.h presence... yes checking for sys/statvfs.h... yes checking whether struct statfs properly defined... yes checking for f_fstypename member of statfs structure... no checking for sys/stat.h... (cached) yes checking for sys/types.h... (cached) yes checking for unistd.h... (cached) yes checking for stat... yes checking for st_fstype member of stat structure... no checking for sys/types.h... (cached) yes checking for sys/statvfs.h... (cached) yes checking for sys/vfs.h... (cached) yes checking for statvfs... yes checking for f_basetype member of statvfs structure... no checking for unistd.h... (cached) yes checking for large file defines... no checking for strerror... yes checking for doctext... false checking for strdup... yes checking whether strdup needs a declaration... no checking for snprintf... yes checking whether snprintf needs a declaration... no checking for lstat... yes checking whether lstat needs a declaration... yes checking for readlink... yes checking whether readlink needs a declaration... no checking for fsync... yes checking whether fsync needs a declaration... no checking for ftruncate... yes checking whether ftruncate needs a declaration... no checking for lseek64... no checking for unistd.h... (cached) yes checking for large file defines... none setting SYSDEP_INC to checking for C/C++ restrict keyword... __restrict checking whether __attribute__ allowed... yes checking whether __attribute__((format)) allowed... yes setting CC to gcc setting F77 to g77 setting TEST_CC to /home/bob/mpich2-1.2.1p1/bin/mpicc setting TEST_F77 to /home/bob/mpich2-1.2.1p1/bin/mpif77 setting CFLAGS to -DNDEBUG -O2 -DFORTRANDOUBLEUNDERSCORE -DHAVE_ROMIOCONF_H setting USER_CFLAGS to setting USER_FFLAGS to configure: creating ./config.status config.status: creating Makefile config.status: creating localdefs config.status: creating mpi-io/Makefile config.status: creating mpi2-other/info/Makefile config.status: creating mpi2-other/array/Makefile config.status: creating adio/common/Makefile config.status: creating test/Makefile config.status: creating test/misc.c config.status: creating test/large_file.c config.status: creating test/runtests config.status: creating test-internal/Makefile config.status: creating util/romioinstall config.status: creating include/mpio.h config.status: creating include/mpiof.h config.status: creating adio/ad_nfs/Makefile config.status: creating adio/ad_ufs/Makefile config.status: creating adio/ad_bgl/Makefile config.status: creating adio/ad_bglockless/Makefile config.status: creating adio/ad_panfs/Makefile config.status: creating adio/ad_xfs/Makefile config.status: creating adio/ad_sfs/Makefile config.status: creating adio/ad_pfs/Makefile config.status: creating adio/ad_testfs/Makefile config.status: creating adio/ad_pvfs/Makefile config.status: creating adio/ad_pvfs2/Makefile config.status: creating adio/ad_gridftp/Makefile config.status: creating adio/ad_lustre/Makefile config.status: creating adio/ad_zoidfs/Makefile config.status: creating mpi-io/fortran/Makefile config.status: creating mpi2-other/info/fortran/Makefile config.status: creating mpi2-other/array/fortran/Makefile config.status: creating test/fmisc.f config.status: creating test/fcoll_test.f config.status: creating test/pfcoll_test.f config.status: creating test/fperf.f config.status: creating mpi-io/glue/mpich2/Makefile config.status: creating mpi-io/glue/mpich1/Makefile config.status: creating mpi-io/glue/default/Makefile config.status: creating common/dataloop/Makefile config.status: creating adio/include/romioconf.h config.status: executing default-1 commands configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives configure: configuring subsystem in src/pmi/simple configure: WARNING: you should use --build, --host, --target configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives RUNNING CONFIGURE FOR THE SIMPLE PMI checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... yes checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for unistd.h... (cached) yes checking for string.h... (cached) yes checking for stdlib.h... (cached) yes checking sys/socket.h usability... yes checking sys/socket.h presence... yes checking for sys/socket.h... yes checking for strings.h... (cached) yes checking assert.h usability... yes checking assert.h presence... yes checking for assert.h... yes checking for snprintf... yes checking whether snprintf needs a declaration... no checking for strncasecmp... yes checking for sys/types.h... (cached) yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking for sys/socket.h... (cached) yes checking netinet/in.h usability... yes checking netinet/in.h presence... yes checking for netinet/in.h... yes checking netinet/tcp.h usability... yes checking netinet/tcp.h presence... yes checking for netinet/tcp.h... yes checking sys/un.h usability... yes checking sys/un.h presence... yes checking for sys/un.h... yes checking netdb.h usability... yes checking netdb.h presence... yes checking for netdb.h... yes checking for library containing socket... none required checking for library containing gethostbyname... none required checking for socket... yes checking for setsockopt... yes checking for gethostbyname... yes checking whether socklen_t is defined (in sys/socket.h if present)... yes checking whether struct hostent contains h_addr_list... yes checking whether __attribute__ allowed... yes checking whether __attribute__((format)) allowed... yes configure: creating ./config.status config.status: creating Makefile config.status: creating localdefs config.status: creating pmiconf.h config.status: pmiconf.h is unchanged configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives configure: configuring subsystem in src/pm/mpd configure: WARNING: you should use --build, --host, --target configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives Configuring with args --prefix=/home/bob/mpich2-1.2.1-install --exec-prefix=/usr/local/lib/pkgconfig --enable-fast=all, 03 build_alias=03 host_alias=03 target_alias=03 --disable-checkerrors --with-atomic-primitives=auto_allow_emulation checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether make sets $(MAKE)... yes checking whether ln -s works... yes checking for a BSD-compatible install... /usr/bin/install -c checking whether install /usr/bin/install -c works... yes Using INSTALL=/usr/bin/install -c checking for totalview... no checking for python2.6... no checking for python2.5... no checking for python2.4... no checking for python2.3... no checking for python2.2... no checking for python2... no checking for python... python checking that python is a valid python version... yes checking that the cPickle module is available for python... yes checking that rebaseall is ok on this cygwin system... checking for library containing socket... none required checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/wait.h that is POSIX.1 compatible... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking for strings.h... (cached) yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking for unistd.h... (cached) yes checking for stdlib.h... (cached) yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking for putenv... yes checking for socket... yes checking for snprintf... yes checking whether snprintf needs a declaration... no configure: creating ./config.status config.status: creating Makefile config.status: creating mpdconf.h configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives configure: configuring subsystem in src/pm/hydra configure: WARNING: you should use --build, --host, --target checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for style of include used by make... GNU checking dependency style of gcc... gcc3 checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for size_t... yes checking build system type... Invalid configuration `03': machine `03' not recognized configure: error: /bin/sh mpl/confdb/config.sub 03 failed configure: error: Configure of src/pm/hydra failed! then I run make: Beginning make Using variables CC='gcc' CFLAGS=' -DNDEBUG -O2' LDFLAGS=' -lrt' AR='ar' FC='g77' F90='gfortran' FFLAGS=' -DNDEBUG -O2' F90FLAGS=' -DNDEBUG' CXX='c++' CPPFLAGS=' -I/home/bob/mpich2-1.2.1p1/src/openpa/src -I/home/bob/mpich2-1.2.1p1/src/openpa/src -DUSE_PROCESS_LOCKS -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/include -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/include -I/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype -I/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype -I/home/bob/mpich2-1.2.1p1/src/mpid/common/locks -I/home/bob/mpich2-1.2.1p1/src/mpid/common/locks -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/include -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/include -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/include -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/include -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils/monitor -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils/monitor -I/home/bob/mpich2-1.2.1p1/src/mpid/common/locks -I/home/bob/mpich2-1.2.1p1/src/mpid/common/locks -I/home/bob/mpich2-1.2.1p1/src/util/wrappers -I/home/bob/mpich2-1.2.1p1/src/util/wrappers' make all-local make[1]: Entering directory `/home/bob/mpich2-1.2.1p1' make[1]: Leaving directory `/home/bob/mpich2-1.2.1p1' make[1]: Entering directory `/home/bob/mpich2-1.2.1p1/src/openpa' Making all in src make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/openpa/src' make all-am make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/openpa/src' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/openpa/src' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/openpa/src' Making all in test make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/openpa/test' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/openpa/test' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/openpa' make[2]: Nothing to be done for `all-am'. make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/openpa' make[1]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/openpa' make[1]: Entering directory `/home/bob/mpich2-1.2.1p1/src' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/common' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/locks' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/locks' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype' make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype/dataloop' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype/dataloop' make all-local make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/common' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels' make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis' make[6]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis' make[7]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/src' CC mpid_nem_net_array.c AR cr ../../../../../../../lib/libmpich.a mpid_nem_net_array.o RANLIB libmpich.a date > .libstamp0 make[7]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/src' make[7]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/netmod' make[8]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/netmod/tcp' make[8]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/netmod/tcp' make[7]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/netmod' make[7]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils' make[8]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils/monitor' make[8]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils/monitor' make[8]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils/replacements' make[8]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils/replacements' make[7]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils' make[6]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis' make[6]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/src' make[6]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/src' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/src' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/src' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/util' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/util' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/attr' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/attr' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/attr' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/attr' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/coll' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/coll' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/coll' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/coll' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/comm' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/comm' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/comm' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/comm' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/datatype' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/datatype' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/datatype' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/datatype' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/errhan' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/errhan' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/errhan' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/errhan' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/group' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/group' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/group' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/group' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/init' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/init' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/init' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/init' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/misc' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/misc' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/misc' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/misc' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/pt2pt' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/pt2pt' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/pt2pt' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/pt2pt' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/rma' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/rma' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/rma' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/rma' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/spawn' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/spawn' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/spawn' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/spawn' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/timer' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/timer' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/timer' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/timer' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/topo' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/topo' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/topo' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/topo' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio' make mpiolib make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio' compiling ROMIO in directory mpi-io make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/mpi-io' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/mpi-io' compiling ROMIO in directory adio/common make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/common' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/common' compiling ROMIO in directory mpi-io/glue/mpich2 make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/mpi-io/glue/mpich2' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/mpi-io/glue/mpich2' compiling ROMIO in directory adio/ad_testfs make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/ad_testfs' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/ad_testfs' compiling ROMIO in directory adio/ad_ufs make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/ad_ufs' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/ad_ufs' compiling ROMIO in directory adio/ad_nfs make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/ad_nfs' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/ad_nfs' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio' building profiling interface in directory mpi-io make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/mpi-io' ar cr /home/bob/mpich2-1.2.1p1/lib/libmpich.a _close.o _read.o _open.o _get_extent.o _write.o _set_view.o _seek.o _read_at.o _prealloc.o _iread.o _iwrite.o _get_posn.o _delete.o _read_all.o _get_bytoff.o _read_atall.o _iread_at.o _iwrite_at.o _get_group.o _get_amode.o _write_all.o _write_at.o _write_atall.o _get_view.o _fsync.o _get_atom.o _set_atom.o _set_size.o _get_size.o _file_f2c.o _file_c2f.o _set_info.o _get_info.o _rd_atallb.o _rd_atalle.o _read_allb.o _read_alle.o _wr_atallb.o _wr_atalle.o _write_allb.o _write_alle.o _get_posn_sh.o _iread_sh.o _read_sh.o _write_sh.o _iwrite_sh.o _seek_sh.o _read_ord.o _read_orde.o _write_ordb.o _read_ordb.o _write_ord.o _write_orde.o _register_datarep.o ranlib /home/bob/mpich2-1.2.1p1/lib/libmpich.a make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/mpi-io' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/mem' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/mem' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/info' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/info' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/info' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/info' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/msgs' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/msgs' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/instrm' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/instrm' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/thread' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/thread' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/dbg' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/dbg' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/param' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/param' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/osserv' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/osserv' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/procmap' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/procmap' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/other' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/other' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/nameserv' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/nameserv/mpd' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/nameserv/mpd' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/nameserv' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/binding' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/binding/f77' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/binding/f77' make[4]: `.libstamp4' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/binding/f77' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/binding/f77' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/binding/cxx' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/binding/cxx' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/binding' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/env' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/env' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/packaging' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/packaging/pkgconfig' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/packaging/pkgconfig' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/packaging/envmods' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/packaging/envmods' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/packaging' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpe2' make --no-print-directory build_lib_bin **** Making src/misc .... make --no-print-directory build_lib_bin make --no-print-directory mpe_debug_objs make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a /home/bob/mpich2-1.2.1p1/bin/mpicc -I.. -I../include -I../../.. -I../../../include -o dbxerr.po -c dbxerr.c dbxerr.c: In function ‘MPE_DefaultHandler’: dbxerr.c:429:1: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘{’ token dbxerr.c:459:1: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘{’ token dbxerr.c:408:6: error: argument ‘sig’ doesn’t match prototype dbxerr.c:407:6: error: prototype declaration dbxerr.c:475:1: error: expected ‘{’ at end of input Makefile:82: recipe for target `dbxerr.po' failed make[7]: *** [dbxerr.po] Error 1 Makefile:111: recipe for target `default' failed make[6]: *** [default] Error 2 Makefile:43: recipe for target `build_lib_bin' failed make[5]: *** [build_lib_bin] Error 2 Makefile:26: recipe for target `all' failed make[4]: *** [all] Error 2 **** Making src/callstack .... make --no-print-directory build_lib_bin make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/bin/check_callstack.exe make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/bin/check_callstack.exe' is up to date. **** Making src/logging .... make --no-print-directory build_lib_bin make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi_null.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi_null.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_null.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_null.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/bin/clog2_print.exe /home/bob/mpich2-1.2.1p1/src/mpe2/bin/clog2_join.exe /home/bob/mpich2-1.2.1p1/src/mpe2/bin/clog2_repair.exe make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/bin/clog2_print.exe' is up to date. make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/bin/clog2_join.exe' is up to date. make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/bin/clog2_repair.exe' is up to date. **** Making src/wrappers .... make --no-print-directory build_lib_bin make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/liblmpe.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/liblmpe.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libtmpe.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libtmpe.a' is up to date. make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_f2cmpi.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/mpe_prof.o make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/mpe_prof.o' is up to date. make --no-print-directory linktest_all make --no-print-directory linktest_C make --no-print-directory linktest_F77 **** Making src/graphics .... make --no-print-directory build_lib_bin make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libampe.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libampe.a' is up to date. make --no-print-directory linktest_all make --no-print-directory linktest_C make --no-print-directory linktest_F77 **** Making src/collchk .... make --no-print-directory build_lib_bin make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_collchk.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_collchk.a' is up to date. make --no-print-directory linktest_all make --no-print-directory linktest_C make --no-print-directory linktest_F77 **** Making src/slog2sdk .... make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpe2' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pmi' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pmi/simple' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pmi/simple' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pmi' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm/mpd' gcc -I. -I. -DNDEBUG -O2 -c mpdroot.c gcc -DNDEBUG -O2 -lrt -o mpdroot mpdroot.o -lpthread make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm/mpd' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm/hydra' Making all in ../../mpl make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpl' make[4]: Nothing to be done for `all'. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpl' Making all in . make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm/hydra' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm/hydra' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm/hydra' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm/gforker' cd ../util && make make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm/util' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm/util' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm/gforker' make all-postamble make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm' if [ -n "mpd" -a -d "mpd" ] ; then \ build_prefix=`cd ../.. && pwd` && cd mpd && \ make prefix=$build_prefix exec_prefix=$build_prefix bindir=$build_prefix/bin mpich2-build-install ; \ fi make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm/mpd' /usr/bin/install -c -m 644 ./mpdroot.c mpich2-mpdroot.c gcc -I. -I. -DNDEBUG -O2 -c mpich2-mpdroot.c rm -f mpich2-mpdroot.c gcc -DNDEBUG -O2 -lrt -o mpich2-mpdroot mpich2-mpdroot.o -lpthread rm -f mpich2-mpdroot.o copying python files/links into /home/bob/mpich2-1.2.1p1/bin rm -f mpich2-mpdroot make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm/mpd' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm' make[1]: Leaving directory `/home/bob/mpich2-1.2.1p1/src' make[1]: Entering directory `/home/bob/mpich2-1.2.1p1/examples' ../bin/mpicc -o cpi cpi.o -lm make[1]: Leaving directory `/home/bob/mpich2-1.2.1p1/examples' make all-postamble make[1]: Entering directory `/home/bob/mpich2-1.2.1p1' Make completed make[1]: Leaving directory `/home/bob/mpich2-1.2.1p1 then I do make install and I got some problem: if [ ! -d /usr/home/bob/mpich2-1.2.1-install ] ; then mkdir -p /usr/home/bob/mpich2-1.2.1-install ; fi if [ ! -d /usr/home/bob/mpich2-1.2.1-install/share ] ; then mkdir -p /usr/home/bob/mpich2-1.2.1-install/share ; fi if [ ! -d /usr/home/bob/mpich2-1.2.1-install/share/doc/ ] ; then mkdir -p /usr/home/bob/mpich2-1.2.1-install/share/doc/ ; fi if [ ! -d /usr/home/bob/mpich2-1.2.1-install/share/man ] ; then mkdir -p /usr/home/bob/mpich2-1.2.1-install/share/man ; fi if [ ! -d /usr/home/bob/mpich2-1.2.1-install/include ] ; then mkdir -p /usr/home/bob/mpich2-1.2.1-install/include ; fi if [ ! -d //usr/local/lib/pkgconfig ] ; then mkdir -p //usr/local/lib/pkgconfig ; fi mkdir: cannot create directory `//usr': Read-only file system Makefile:194: recipe for target `install' failed make: *** [install] Error 1 any help will be very appreciated!!! I wish to hear from you Angelo Angelo Paone *********************************************** Research Professor Post-Doctoral Research Fellow Marie Curie Fellow PhD, MSc, BSc Pusan Natioanl University Department of Earth Science 30, Jangjeon-dong, Geumjeong-gu Busan, Republic of Korea Tel. +82-51-510-2987 _______________________________________________ discuss mailing list discuss(a)mpich.org To manage subscription options or unsubscribe: https://lists.mpich.org/mailman/listinfo/discuss

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Re: [mpich-discuss] uninstall mpich2-1.2.1p1 from cygwin
by Jayesh Krishna 21 Feb '13

21 Feb '13

Hi, Since you downloaded the source and built it (download source/configure/make) you should not have to go thorough setup.exe to uninstall MPICH2. If you had installed a package via the cygwin package manager use it to uninstall it too. Regards, Jayesh ----- Original Message ----- From: "Angelo Paone" <angelo.paone1(a)gmail.com> To: discuss(a)mpich.org Sent: Wednesday, February 20, 2013 10:41:58 PM Subject: [mpich-discuss] uninstall mpich2-1.2.1p1 from cygwin Dear MPICH mailing list, I have installed the following version of MPICH2 V. 1.2.1p1 downloading and unzipping the package mpich2-1.2.1p1.tar.gz in cygwin, now I would like to uninstall it, I undenstand that in cygwin the single packake are uninstalled using the setup.exe command, but for MPICH package, I can not use this method, should I use the remove command?? Any help will greatly appreciated!!! Best wishes Angelo Angelo Paone *********************************************** Research Professor Post-Doctoral Research Fellow Marie Curie Fellow PhD, MSc, BSc Pusan Natioanl University Department of Earth Science 30, Jangjeon-dong, Geumjeong-gu Busan, Republic of Korea Tel. +82-51-510-2987 _______________________________________________ discuss mailing list discuss(a)mpich.org To manage subscription options or unsubscribe: https://lists.mpich.org/mailman/listinfo/discuss

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problem installing mpich2-1.2.1p1 in cygwin
by Angelo Paone 21 Feb '13

21 Feb '13

I download the mpich2-1.2.1p1.tar.gz<http://www.mpich.org/static/tarballs/1.2.1p1/mpich2-1.2.1p1.tar.gz> package, unzip and mkdir /home/bob/mpich2-1.2.1p1 then I mkdir /home/bob/mpich2-1.2.1p1-install then I run ./configure --prefix=/home/bob/mpich2-1.2.1-install --exec-prefix=/usr/local/lib/pkgconfig --enable-fast=all, 03 THE OUTPUT IS FOLLOWING: configure: WARNING: you should use --build, --host, --target Configuring MPICH2 version 1.2.1p1 with '--prefix=/home/bob/mpich2-1.2.1-install' '--exec-prefix=/usr/local/lib/pkgconfig' '--enable-fast=all,' '03' 'build_alias=03' 'host_alias=03' 'target_alias=03' Running on system: CYGWIN_NT-6.1 PC 1.7.17(0.262/5/3) 2012-10-19 14:39 i686 Cygwin Executing mpich2prereq in /home/bob/mpich2-1.2.1p1/src/mpid/ch3 with Executing mpich2prereq in /home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis sourcing /home/bob/mpich2-1.2.1p1/src/pm/mpd/mpich2prereq sourcing /home/bob/mpich2-1.2.1p1/src/pm/hydra/mpich2prereq sourcing /home/bob/mpich2-1.2.1p1/src/pm/gforker/mpich2prereq sourcing /home/bob/mpich2-1.2.1p1/src/pm/mpd/setup_pm checking for 03-gcc... no checking for gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E checking whether the compiler defines __func__... yes checking whether the compiler defines __FUNC__... no checking whether the compiler sets __FUNCTION__... yes checking whether C compiler accepts option -O2... yes checking whether routines compiled with -O2 can be linked with ones compiled without -O2... yes checking for type of weak symbol alias support... pragma weak does not work outside of a file no checking whether __attribute__ ((weak)) allowed... yes checking whether __attribute ((weak_import)) allowed... yes checking for 03-g77... no checking for 03-xlf... no checking for 03-f77... no checking for 03-frt... no checking for 03-pgf77... no checking for 03-cf77... no checking for 03-fort77... no checking for 03-fl32... no checking for 03-af77... no checking for 03-xlf90... no checking for 03-f90... no checking for 03-pgf90... no checking for 03-pghpf... no checking for 03-epcf90... no checking for 03-gfortran... no checking for 03-g95... no checking for 03-xlf95... no checking for 03-f95... no checking for 03-fort... no checking for 03-ifort... no checking for 03-ifc... no checking for 03-efc... no checking for 03-pgf95... no checking for 03-lf95... no checking for 03-ftn... no checking for g77... g77 checking whether we are using the GNU Fortran 77 compiler... yes checking whether g77 accepts -g... yes checking whether Fortran 77 compiler accepts option -O2... yes checking whether routines compiled with -O2 can be linked with ones compiled without -O2... yes checking how to get verbose linking output from g77... -v checking for Fortran 77 libraries of g77... -L/usr/lib/gcc/i686-pc-cygwin/3.4.4 -L/usr/lib/gcc/i686-pc-cygwin/3.4.4/../../.. -lfrtbegin -lg2c -lcygwin -luser32 -lkernel32 -ladvapi32 -lshell32 checking whether g77 accepts the FLIBS found by autoconf... yes checking whether C can link with -L/usr/lib/gcc/i686-pc-cygwin/3.4.4 -L/usr/lib/gcc/i686-pc-cygwin/3.4.4/../../.. -lfrtbegin -lg2c -lcygwin -luser32 -lkernel32 -ladvapi32 -lshell32... yes checking for linker for Fortran main programs... Use Fortran to link programs checking whether Fortran 77 and C objects are compatible... yes checking for Fortran 77 name mangling... lower doubleunderscore checking what libraries are needed to link Fortran programs with C routines that use stdio... none checking whether Fortran init will work with C... yes checking for 03-f90... no checking for 03-xlf90... no checking for 03-pgf90... no checking for 03-ifort... no checking for 03-epcf90... no checking for 03-f95... no checking for 03-fort... no checking for 03-xlf95... no checking for 03-lf95... no checking for 03-pathf95... no checking for 03-pathf90... no checking for 03-g95... no checking for 03-gfortran... no checking for 03-ifc... no checking for 03-efc... no checking for f90... no checking for xlf90... no checking for pgf90... no checking for ifort... no checking for epcf90... no checking for f95... no checking for fort... no checking for xlf95... no checking for lf95... no checking for pathf95... no checking for pathf90... no checking for g95... no checking for gfortran... gfortran checking that f works as the extension for Fortran 90 program... yes checking whether we are using the GNU Fortran 90 compiler... yes checking whether gfortran accepts -g... yes checking for extension for Fortran 90 programs... f90 checking whether the Fortran 90 compiler (gfortran -DNDEBUG ) works... yes checking whether the Fortran 90 compiler (gfortran -DNDEBUG ) is a cross-compiler... no checking whether Fortran 90 works with Fortran 77... cat: conftest.f90: No such file or directory Output from the link step is /tmp/ccYCQbvY.o:conftest1.f90:(.text+0x14): undefined reference to `_t1_2_' collect2: ld returned 1 exit status no configure: WARNING: The test program that was used and the output may be found in config.log configure: WARNING: The selected Fortran 90 compiler gfortran does not work with the selected Fortran 77 compiler g77. Use the environment variables F90 and F77 respectively to select compatible Fortran compilers. The check here tests to see if a main program compiled with the Fortran 90 compiler can link with a subroutine compiled with the Fortran 77 compiler. checking whether Fortran accepts ! for comments... yes checking for include directory flag for Fortran... -I checking for Fortran 77 flag for library directories... -L checking for which Fortran libraries are needed to link C with Fortran... none checking whether Fortran compiler processes .F files with C preprocessor... yes checking for c++... c++ checking whether we are using the GNU C++ compiler... yes checking whether c++ accepts -g... yes checking whether the C++ compiler c++ can build an executable... yes checking whether C++ compiler works with string... yes checking whether the compiler supports exceptions... yes checking whether the compiler recognizes bool as a built-in type... yes checking whether the compiler implements namespaces... yes checking whether <iostream> available... yes checking whether the compiler implements the namespace std... yes checking whether <math> available... no checking for GNU g++ version... 4 . 5 checking whether C++ compiler accepts option -O2... yes checking whether routines compiled with -O2 can be linked with ones compiled without -O2... yes checking for perl... /usr/bin/perl checking for ar... ar checking for ranlib... ranlib checking for killall... killall checking for a BSD-compatible install... /usr/bin/install -c checking whether install works... yes checking for 03-ranlib... (cached) ranlib checking whether install breaks libraries... no checking whether mkdir -p works... yes checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... no checking for bash... /usr/bin/bash checking whether /usr/bin/bash supports arrays... yes checking for doctext... false checking for location of doctext style files... unavailable checking for an ANSI C-conforming const... yes checking for working volatile... yes checking for C/C++ restrict keyword... __restrict checking for inline... inline checking whether __attribute__ allowed... yes checking whether __attribute__((format)) allowed... yes checking whether byte ordering is bigendian... no checking whether C compiler allows unaligned doubles... yes checking whether gcc supports __func__... yes Using gcc to determine dependencies checking whether long double is supported... yes checking whether long long is supported... yes checking for max C struct integer alignment... eight checking for max C struct floating point alignment... four checking for max C struct alignment of structs with doubles... eight checking for max C struct floating point alignment with long doubles... four configure: WARNING: Structures containing long doubles may be aligned differently from structures with floats or longs. MPICH2 does not handle this case automatically and you should avoid assumed extents for structures containing float types. checking if alignment of structs with doubles is based on position... no checking if alignment of structs with long long ints is based on position... no checking if double alignment breaks rules, find actual alignment... no checking for alignment restrictions on pointers... int or better checking size of char... 1 checking size of unsigned char... 1 checking size of short... 2 checking size of unsigned short... 2 checking size of int... 4 checking size of unsigned int... 4 checking size of long... 4 checking size of unsigned long... 4 checking size of long long... 8 checking size of unsigned long long... 8 checking size of float... 4 checking size of double... 8 checking size of long double... 12 checking size of void *... 4 checking for ANSI C header files... no checking stddef.h usability... yes checking stddef.h presence... yes checking for stddef.h... yes checking size of wchar_t... 2 checking size of float_int... 8 checking size of double_int... 16 checking size of long_int... 8 checking size of short_int... 8 checking size of two_int... 8 checking size of long_double_int... 16 checking sys/bitypes.h usability... no checking sys/bitypes.h presence... no checking for sys/bitypes.h... no checking inttypes.h usability... yes checking inttypes.h presence... yes checking for inttypes.h... yes checking stdint.h usability... yes checking stdint.h presence... yes checking for stdint.h... yes checking for int8_t... yes checking for int16_t... yes checking for int32_t... yes checking for int64_t... yes checking for uint8_t... yes checking for uint16_t... yes checking for uint32_t... yes checking for uint64_t... yes checking size of _Bool... 1 checking size of float _Complex... 8 checking size of double _Complex... 16 checking size of long double _Complex... 24 checking for _Bool... yes checking for float _Complex... yes checking for double _Complex... yes checking for long double _Complex... yes checking for size of Fortran type integer... 4 checking for size of Fortran type real... 4 checking for size of Fortran type double precision... 8 checking whether integer*1 is supported... yes checking whether integer*2 is supported... yes checking whether integer*4 is supported... yes checking whether integer*8 is supported... yes checking whether integer*16 is supported... no checking whether real*4 is supported... yes checking whether real*8 is supported... yes checking whether real*16 is supported... no checking for C type matching Fortran integer... int checking for size of MPI_Status... 20 checking for values of Fortran logicals... True is 1 and False is 0 checking for Fortran 90 integer kind for 4-byte integers... 4 checking for Fortran 90 integer kind for 8-byte integers... 8 checking whether real*8 is supported in Fortran 90... yes checking size of bool... 1 checking how to run the C++ preprocessor... c++ -E checking complex usability... yes checking complex presence... yes checking for complex... yes checking size of Complex... 8 checking size of DoubleComplex... 16 checking size of LongDoubleComplex... 24 checking if char * pointers use byte addresses... yes checking for alignment restrictions on ... no checking for alignment restrictions on int32_t... no checking size of MPIR_Bsend_data_t... 56 checking for gcc __asm__ and pentium cmpxchgl instruction... yes checking for gcc __asm__ and AMD x86_64 cmpxchgq instruction... no checking for gcc __asm__ and IA64 xchg4 instruction... no checking for ANSI C header files... (cached) no checking stdlib.h usability... yes checking stdlib.h presence... yes checking for stdlib.h... yes checking stdarg.h usability... yes checking stdarg.h presence... yes checking for stdarg.h... yes checking sys/types.h usability... yes checking sys/types.h presence... yes checking for sys/types.h... yes checking string.h usability... yes checking string.h presence... yes checking for string.h... yes checking for inttypes.h... (cached) yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking for stddef.h... (cached) yes checking errno.h usability... yes checking errno.h presence... yes checking for errno.h... yes checking sys/socket.h usability... yes checking sys/socket.h presence... yes checking for sys/socket.h... yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking unistd.h usability... yes checking unistd.h presence... yes checking for unistd.h... yes checking endian.h usability... yes checking endian.h presence... yes checking for endian.h... yes checking assert.h usability... yes checking assert.h presence... yes checking for assert.h... yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking for sys/uio.h... yes checking for size_t... yes checking for setitimer... yes checking for alarm... yes checking for vsnprintf... yes checking for vsprintf... yes checking whether vsnprintf needs a declaration... no checking for strerror... yes checking for strncasecmp... yes checking for snprintf... yes checking whether snprintf needs a declaration... no checking for va_copy... yes checking for variable argument list macro functionality... yes checking valgrind.h usability... no checking valgrind.h presence... no checking for valgrind.h... no checking memcheck.h usability... no checking memcheck.h presence... no checking for memcheck.h... no checking valgrind/valgrind.h usability... no checking valgrind/valgrind.h presence... no checking for valgrind/valgrind.h... no checking valgrind/memcheck.h usability... no checking valgrind/memcheck.h presence... no checking for valgrind/memcheck.h... no checking for working alloca.h... yes checking for alloca... yes checking for strdup... yes checking whether strdup needs a declaration... no checking for mkstemp... yes checking whether mkstemp needs a declaration... no checking for fdopen... yes checking whether fdopen needs a declaration... yes checking for putenv... yes checking whether putenv needs a declaration... no checking for clock_gettime... yes checking for clock_getres... yes checking for gethrtime... no checking for gettimeofday... yes checking for clock_gettime in -lrt... yes checking for clock_getres... (cached) yes checking whether struct timespec is defined in time.h... yes checking for CLOCK_REALTIME defined in time.h... yes sourcing /home/bob/mpich2-1.2.1p1/src/mpid/ch3/setup_device RUNNING SETUP_DEVICE FOR THE CH3 DEVICE sourcing /home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/setup_channel RUNNING SETUP_CHANNEL FOR THE NEMESIS CHANNEL sourcing /home/bob/mpich2-1.2.1p1/src/mpid/common/locks/setup RUNNING SETUP FOR THE PROCESS LOCKS MODULE SPARC V9 inline spin locks supported...no SPARC V8 inline spin locks supported...no checking pthread.h usability... yes checking pthread.h presence... yes checking for pthread.h... yes checking for fgrep... /usr/bin/fgrep checking for pthread_key_create in -lpthread... yes checking for pthread_yield... yes checking for pthread_key_create... yes checking for pthread_cleanup_push... no checking whether pthread_cleanup_push is available (may be a macro in pthread.h)... no checking whether pthread.h defines PTHREAD_MUTEX_RECURSIVE_NP... no checking whether pthread.h defines PTHREAD_MUTEX_RECURSIVE... yes checking whether pthread.h defines PTHREAD_MUTEX_ERRORCHECK_NP... no checking whether pthread.h defines PTHREAD_MUTEX_ERRORCHECK... yes checking for sched_yield... yes checking for yield... no checking for usleep... yes checking for sleep... yes checking for select... yes checking for getpid... yes checking for sched_setaffinity... no checking for sched_getaffinity... no checking for bindprocessor... no checking for thread_policy_set... no configure: configuring subsystem in src/openpa configure: WARNING: you should use --build, --host, --target configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for style of include used by make... GNU checking dependency style of gcc... gcc3 checking for 03-ranlib... ranlib checking whether to enable assertions... yes checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking pthread.h usability... yes checking pthread.h presence... yes checking for pthread.h... yes checking atomic.h usability... no checking atomic.h presence... no checking for atomic.h... no checking intrin.h usability... no checking intrin.h presence... no checking for intrin.h... no checking for inttypes.h... (cached) yes checking for stdint.h... (cached) yes checking for C/C++ restrict keyword... __restrict checking for inline... inline checking for an ANSI C-conforming const... yes checking for pthread_create in -lpthread... yes checking for pthread_yield... yes checking if 100 threads can be run at once... yes checking size of void *... 4 checking size of int... 4 checking whether __attribute__ allowed... yes checking whether __attribute__((format)) allowed... yes checking if compiler rejects bogus asm statements... yes checking for support for gcc x86/x86_64 bit primitives... yes checking for support for gcc x86 bit primitives for pre-Pentium 4... yes checking for support for gcc ia64 primitives... no checking for support for gcc PowerPC atomics... no checking for support for gcc SiCortex atomics... no checking for support for gcc atomic intrinsics... yes checking for support for Windows NT atomic intrinsics... no checking for support for Sun atomic operations library... no checking whether to enable strict fairness checks... no configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating test/Makefile config.status: creating openpa.pc config.status: creating src/config.h config.status: src/config.h is unchanged config.status: executing src/opa_config.h commands config.status: creating src/opa_config.h - prefix OPA for src/config.h defines config.status: src/opa_config.h is unchanged config.status: executing depfiles commands configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors configure: configuring subsystem in src/mpid/ch3 configure: WARNING: you should use --build, --host, --target RUNNING CONFIGURE FOR CH3 DEVICE checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... yes checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes 16 checking assert.h usability... yes checking assert.h presence... yes checking for assert.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking for string.h... (cached) yes checking for sys/types.h... (cached) yes checking sys/uio.h usability... yes checking sys/uio.h presence... yes checking for sys/uio.h... yes checking uuid/uuid.h usability... yes checking uuid/uuid.h presence... yes checking for uuid/uuid.h... yes checking time.h usability... yes checking time.h presence... yes checking for time.h... yes checking ctype.h usability... yes checking ctype.h presence... yes checking for ctype.h... yes checking for unistd.h... (cached) yes checking arpa/inet.h usability... yes checking arpa/inet.h presence... yes checking for arpa/inet.h... yes checking sys/socket.h usability... yes checking sys/socket.h presence... yes checking for sys/socket.h... yes checking for net/if.h... yes checking for pid_t... yes checking for inet_pton... yes checking for gethostname... yes checking whether gethostname needs a declaration... no checking for CFUUIDCreate... no checking for uuid_generate... no checking for time... yes checking whether CPP accepts variable length argument lists... yes checking whether byte ordering is bigendian... no checking whether we can use struct ifconf... yes checking size of int... 4 checking size of long... 4 checking size of long long... 8 checking size of void *... 4 configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating util/Makefile config.status: creating util/shm/Makefile config.status: creating util/shmbase/Makefile config.status: creating channels/Makefile config.status: creating util/ftb/Makefile config.status: creating localdefs config.status: creating include/mpid_thread.h config.status: creating include/mpidi_ch3_conf.h config.status: include/mpidi_ch3_conf.h is unchanged config.status: executing default-1 commands copying ./../common/thread/mpid_thread_mpe.c to src/mpid_thread.c === configuring in channels/nemesis (/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis) configure: running /bin/sh ./configure --disable-option-checking '--prefix=/home/bob/mpich2-1.2.1-install' '--exec-prefix=/usr/local/lib/pkgconfig' '--enable-fast=all,' '03' 'build_alias=03' 'host_alias=03' 'target_alias=03' '--disable-checkerrors' '--with-atomic-primitives=auto_allow_emulation' 'CC=gcc' 'CFLAGS= -DNDEBUG -O2' 'LDFLAGS= -lrt' 'LIBS= -lpthread' 'CPPFLAGS= -I/home/bob/mpich2-1.2.1p1/src/openpa/src -I/home/bob/mpich2-1.2.1p1/src/openpa/src -DUSE_PROCESS_LOCKS' --cache-file=/dev/null --srcdir=. configure: WARNING: you should use --build, --host, --target RUNNING CONFIGURE FOR THE NEMESIS CHANNEL checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... yes checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for inline... inline checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for pid_t... yes checking for net/if.h... yes checking assert.h usability... yes checking assert.h presence... yes checking for assert.h... yes checking netdb.h usability... yes checking netdb.h presence... yes checking for netdb.h... yes checking for unistd.h... (cached) yes checking sched.h usability... yes checking sched.h presence... yes checking for sched.h... yes checking sys/mman.h usability... yes checking sys/mman.h presence... yes checking for sys/mman.h... yes checking sys/ioctl.h usability... yes checking sys/ioctl.h presence... yes checking for sys/ioctl.h... yes checking sys/socket.h usability... yes checking sys/socket.h presence... yes checking for sys/socket.h... yes checking sys/sockio.h usability... no checking sys/sockio.h presence... no checking for sys/sockio.h... no checking for sys/types.h... (cached) yes checking errno.h usability... yes checking errno.h presence... yes checking for errno.h... yes checking sys/ipc.h usability... yes checking sys/ipc.h presence... yes checking for sys/ipc.h... yes checking sys/shm.h usability... yes checking sys/shm.h presence... yes checking for sys/shm.h... yes checking for netinet/in.h... yes checking for mkstemp... yes checking for rand... yes checking for srand... yes checking for OpenPA atomic primitive availability... yes checking for mmap... yes checking for munmap... yes configure: Using a memory-mapped file for shared memory checking whether struct hostent contains h_addr_list... yes checking whether we can use struct ifconf... yes checking knem_io.h usability... no checking knem_io.h presence... no checking for knem_io.h... no configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating nemesis/Makefile config.status: creating nemesis/src/Makefile config.status: creating nemesis/utils/Makefile config.status: creating nemesis/utils/replacements/Makefile config.status: creating nemesis/utils/monitor/Makefile config.status: creating nemesis/netmod/Makefile config.status: creating nemesis/netmod/elan/Makefile config.status: creating nemesis/netmod/gm/Makefile config.status: creating nemesis/netmod/mx/Makefile config.status: creating nemesis/netmod/tcp/Makefile config.status: creating nemesis/netmod/ib/Makefile config.status: creating nemesis/netmod/psm/Makefile config.status: creating nemesis/netmod/newmad/Makefile config.status: creating nemesis/netmod/none/Makefile config.status: creating localdefs config.status: creating nemesis/include/mpid_nem_net_module_defs.h config.status: creating nemesis/src/mpid_nem_net_array.c config.status: creating include/mpidi_ch3i_nemesis_conf.h config.status: include/mpidi_ch3i_nemesis_conf.h is unchanged configure: configuring subsystem in src/mpid/common/locks configure: WARNING: you should use --build, --host, --target configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives RUNNING CONFIGURE FOR LOCKS checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... yes checking for ar... ar checking for ranlib... ranlib checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for yield... no checking for sched_yield... yes checking for usleep... yes checking for sleep... yes checking for select... yes checking for mutex_init... no checking for compare_and_swap... no checking for pthread_mutexattr_init... yes checking for pthread_mutexattr_setpshared... yes checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking pthread.h usability... yes checking pthread.h presence... yes checking for pthread.h... yes checking sched.h usability... yes checking sched.h presence... yes checking for sched.h... yes checking for inline... inline checking for working volatile... yes checking for an ANSI C-conforming const... yes configure: creating ./config.status config.status: creating Makefile config.status: creating mpid_locksconf.h config.status: mpid_locksconf.h is unchanged configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives configure: configuring subsystem in src/mpid/common/locks configure: WARNING: you should use --build, --host, --target configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives RUNNING CONFIGURE FOR LOCKS checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... yes checking for ar... ar checking for ranlib... ranlib checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for yield... no checking for sched_yield... yes checking for usleep... yes checking for sleep... yes checking for select... yes checking for mutex_init... no checking for compare_and_swap... no checking for pthread_mutexattr_init... yes checking for pthread_mutexattr_setpshared... yes checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking pthread.h usability... yes checking pthread.h presence... yes checking for pthread.h... yes checking sched.h usability... yes checking sched.h presence... yes checking for sched.h... yes checking for inline... inline checking for working volatile... yes checking for an ANSI C-conforming const... yes configure: creating ./config.status config.status: creating Makefile config.status: creating mpid_locksconf.h config.status: mpid_locksconf.h is unchanged configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives configure: configuring subsystem in src/mpi/romio configure: WARNING: you should use --build, --host, --target configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives Configuring with args --prefix=/home/bob/mpich2-1.2.1-install --exec-prefix=/usr/local/lib/pkgconfig --enable-fast=all, 03 build_alias=03 host_alias=03 target_alias=03 --disable-checkerrors --with-atomic-primitives=auto_allow_emulation checking for architecture... i686 configure: WARNING: Unknown architecture ... proceeding anyway ROMIO home directory is /home/bob/mpich2-1.2.1p1/src/mpi/romio checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for 03-g77... g77 checking whether we are using the GNU Fortran 77 compiler... yes checking whether g77 accepts -g... yes checking for memalign... yes checking Fortran external names Fortran externals are lower case and have two trailing underscores checking for inline... inline checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for unistd.h... (cached) yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking malloc.h usability... yes checking malloc.h presence... yes checking for malloc.h... yes checking stddef.h usability... yes checking stddef.h presence... yes checking for stddef.h... yes checking for sys/types.h... (cached) yes checking for u_char... yes checking for u_short... yes checking for u_int... yes checking for u_long... yes checking sys/attr.h usability... no checking sys/attr.h presence... no checking for sys/attr.h... no checking size of int... 4 checking size of void *... 4 checking for int large enough for pointers... yes checking size of long long... 8 checking for extension for Fortran 90 programs... f90 checking for Fortran 90 KIND parameter for 8-byte integers... 8 checking that we can use integer*8 to declare MPI_DISPLACMENT_CURRENT... yes Overriding Array test for MPICH2 checking for weak symbol support... pragma weak checking that weak symbols are visible to other files... no no checking whether struct flock compatible with MPI_Offset... yes checking for pvfs2-config... notfound checking configured file systems... testfs ufs nfs configure: WARNING: File locks may not work with NFS. See the Installation and users manual for instructions on testing and if necessary fixing this checking for library containing aio_write... no checking for library containing pthread_create... none required checking for library containing aio_write... (cached) no checking whether aio routines can be used... no checking for obsolete two-argument aio_write... no checking for obsolete two-argument aio_suspend... no checking for aio_fildes member of aiocb structure... no checking for aio_whence member of aiocb structure... no checking for aio_handle member of aiocb structure... no checking for aio_reqprio member of aiocb structure... no checking for aio_sigevent member of aiocb structure... no checking sys/vfs.h usability... yes checking sys/vfs.h presence... yes checking for sys/vfs.h... yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking sys/mount.h usability... yes checking sys/mount.h presence... yes checking for sys/mount.h... yes checking sys/statvfs.h usability... yes checking sys/statvfs.h presence... yes checking for sys/statvfs.h... yes checking whether struct statfs properly defined... yes checking for f_fstypename member of statfs structure... no checking for sys/stat.h... (cached) yes checking for sys/types.h... (cached) yes checking for unistd.h... (cached) yes checking for stat... yes checking for st_fstype member of stat structure... no checking for sys/types.h... (cached) yes checking for sys/statvfs.h... (cached) yes checking for sys/vfs.h... (cached) yes checking for statvfs... yes checking for f_basetype member of statvfs structure... no checking for unistd.h... (cached) yes checking for large file defines... no checking for strerror... yes checking for doctext... false checking for strdup... yes checking whether strdup needs a declaration... no checking for snprintf... yes checking whether snprintf needs a declaration... no checking for lstat... yes checking whether lstat needs a declaration... yes checking for readlink... yes checking whether readlink needs a declaration... no checking for fsync... yes checking whether fsync needs a declaration... no checking for ftruncate... yes checking whether ftruncate needs a declaration... no checking for lseek64... no checking for unistd.h... (cached) yes checking for large file defines... none setting SYSDEP_INC to checking for C/C++ restrict keyword... __restrict checking whether __attribute__ allowed... yes checking whether __attribute__((format)) allowed... yes setting CC to gcc setting F77 to g77 setting TEST_CC to /home/bob/mpich2-1.2.1p1/bin/mpicc setting TEST_F77 to /home/bob/mpich2-1.2.1p1/bin/mpif77 setting CFLAGS to -DNDEBUG -O2 -DFORTRANDOUBLEUNDERSCORE -DHAVE_ROMIOCONF_H setting USER_CFLAGS to setting USER_FFLAGS to configure: creating ./config.status config.status: creating Makefile config.status: creating localdefs config.status: creating mpi-io/Makefile config.status: creating mpi2-other/info/Makefile config.status: creating mpi2-other/array/Makefile config.status: creating adio/common/Makefile config.status: creating test/Makefile config.status: creating test/misc.c config.status: creating test/large_file.c config.status: creating test/runtests config.status: creating test-internal/Makefile config.status: creating util/romioinstall config.status: creating include/mpio.h config.status: creating include/mpiof.h config.status: creating adio/ad_nfs/Makefile config.status: creating adio/ad_ufs/Makefile config.status: creating adio/ad_bgl/Makefile config.status: creating adio/ad_bglockless/Makefile config.status: creating adio/ad_panfs/Makefile config.status: creating adio/ad_xfs/Makefile config.status: creating adio/ad_sfs/Makefile config.status: creating adio/ad_pfs/Makefile config.status: creating adio/ad_testfs/Makefile config.status: creating adio/ad_pvfs/Makefile config.status: creating adio/ad_pvfs2/Makefile config.status: creating adio/ad_gridftp/Makefile config.status: creating adio/ad_lustre/Makefile config.status: creating adio/ad_zoidfs/Makefile config.status: creating mpi-io/fortran/Makefile config.status: creating mpi2-other/info/fortran/Makefile config.status: creating mpi2-other/array/fortran/Makefile config.status: creating test/fmisc.f config.status: creating test/fcoll_test.f config.status: creating test/pfcoll_test.f config.status: creating test/fperf.f config.status: creating mpi-io/glue/mpich2/Makefile config.status: creating mpi-io/glue/mpich1/Makefile config.status: creating mpi-io/glue/default/Makefile config.status: creating common/dataloop/Makefile config.status: creating adio/include/romioconf.h config.status: executing default-1 commands configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives configure: configuring subsystem in src/pmi/simple configure: WARNING: you should use --build, --host, --target configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives RUNNING CONFIGURE FOR THE SIMPLE PMI checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... yes checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for unistd.h... (cached) yes checking for string.h... (cached) yes checking for stdlib.h... (cached) yes checking sys/socket.h usability... yes checking sys/socket.h presence... yes checking for sys/socket.h... yes checking for strings.h... (cached) yes checking assert.h usability... yes checking assert.h presence... yes checking for assert.h... yes checking for snprintf... yes checking whether snprintf needs a declaration... no checking for strncasecmp... yes checking for sys/types.h... (cached) yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking for sys/socket.h... (cached) yes checking netinet/in.h usability... yes checking netinet/in.h presence... yes checking for netinet/in.h... yes checking netinet/tcp.h usability... yes checking netinet/tcp.h presence... yes checking for netinet/tcp.h... yes checking sys/un.h usability... yes checking sys/un.h presence... yes checking for sys/un.h... yes checking netdb.h usability... yes checking netdb.h presence... yes checking for netdb.h... yes checking for library containing socket... none required checking for library containing gethostbyname... none required checking for socket... yes checking for setsockopt... yes checking for gethostbyname... yes checking whether socklen_t is defined (in sys/socket.h if present)... yes checking whether struct hostent contains h_addr_list... yes checking whether __attribute__ allowed... yes checking whether __attribute__((format)) allowed... yes configure: creating ./config.status config.status: creating Makefile config.status: creating localdefs config.status: creating pmiconf.h config.status: pmiconf.h is unchanged configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives configure: configuring subsystem in src/pm/mpd configure: WARNING: you should use --build, --host, --target configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives Configuring with args --prefix=/home/bob/mpich2-1.2.1-install --exec-prefix=/usr/local/lib/pkgconfig --enable-fast=all, 03 build_alias=03 host_alias=03 target_alias=03 --disable-checkerrors --with-atomic-primitives=auto_allow_emulation checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether make sets $(MAKE)... yes checking whether ln -s works... yes checking for a BSD-compatible install... /usr/bin/install -c checking whether install /usr/bin/install -c works... yes Using INSTALL=/usr/bin/install -c checking for totalview... no checking for python2.6... no checking for python2.5... no checking for python2.4... no checking for python2.3... no checking for python2.2... no checking for python2... no checking for python... python checking that python is a valid python version... yes checking that the cPickle module is available for python... yes checking that rebaseall is ok on this cygwin system... checking for library containing socket... none required checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/wait.h that is POSIX.1 compatible... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking for strings.h... (cached) yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking for unistd.h... (cached) yes checking for stdlib.h... (cached) yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking for putenv... yes checking for socket... yes checking for snprintf... yes checking whether snprintf needs a declaration... no configure: creating ./config.status config.status: creating Makefile config.status: creating mpdconf.h configure: WARNING: unrecognized options: --enable-fast, --disable-checkerrors, --with-atomic-primitives configure: configuring subsystem in src/pm/hydra configure: WARNING: you should use --build, --host, --target checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking for 03-gcc... gcc checking for C compiler default output file name... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for style of include used by make... GNU checking dependency style of gcc... gcc3 checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for size_t... yes checking build system type... Invalid configuration `03': machine `03' not recognized configure: error: /bin/sh mpl/confdb/config.sub 03 failed configure: error: Configure of src/pm/hydra failed! then I run make: Beginning make Using variables CC='gcc' CFLAGS=' -DNDEBUG -O2' LDFLAGS=' -lrt' AR='ar' FC='g77' F90='gfortran' FFLAGS=' -DNDEBUG -O2' F90FLAGS=' -DNDEBUG' CXX='c++' CPPFLAGS=' -I/home/bob/mpich2-1.2.1p1/src/openpa/src -I/home/bob/mpich2-1.2.1p1/src/openpa/src -DUSE_PROCESS_LOCKS -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/include -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/include -I/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype -I/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype -I/home/bob/mpich2-1.2.1p1/src/mpid/common/locks -I/home/bob/mpich2-1.2.1p1/src/mpid/common/locks -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/include -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/include -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/include -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/include -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils/monitor -I/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils/monitor -I/home/bob/mpich2-1.2.1p1/src/mpid/common/locks -I/home/bob/mpich2-1.2.1p1/src/mpid/common/locks -I/home/bob/mpich2-1.2.1p1/src/util/wrappers -I/home/bob/mpich2-1.2.1p1/src/util/wrappers' make all-local make[1]: Entering directory `/home/bob/mpich2-1.2.1p1' make[1]: Leaving directory `/home/bob/mpich2-1.2.1p1' make[1]: Entering directory `/home/bob/mpich2-1.2.1p1/src/openpa' Making all in src make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/openpa/src' make all-am make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/openpa/src' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/openpa/src' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/openpa/src' Making all in test make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/openpa/test' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/openpa/test' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/openpa' make[2]: Nothing to be done for `all-am'. make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/openpa' make[1]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/openpa' make[1]: Entering directory `/home/bob/mpich2-1.2.1p1/src' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/common' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/locks' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/locks' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype' make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype/dataloop' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype/dataloop' make all-local make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/common/datatype' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/common' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels' make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis' make[6]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis' make[7]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/src' CC mpid_nem_net_array.c AR cr ../../../../../../../lib/libmpich.a mpid_nem_net_array.o RANLIB libmpich.a date > .libstamp0 make[7]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/src' make[7]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/netmod' make[8]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/netmod/tcp' make[8]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/netmod/tcp' make[7]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/netmod' make[7]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils' make[8]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils/monitor' make[8]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils/monitor' make[8]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils/replacements' make[8]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils/replacements' make[7]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis/utils' make[6]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/nemesis' make[6]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/src' make[6]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis/src' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels/nemesis' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/channels' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/src' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/src' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/util' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3/util' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid/ch3' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpid' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/attr' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/attr' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/attr' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/attr' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/coll' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/coll' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/coll' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/coll' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/comm' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/comm' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/comm' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/comm' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/datatype' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/datatype' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/datatype' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/datatype' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/errhan' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/errhan' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/errhan' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/errhan' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/group' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/group' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/group' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/group' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/init' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/init' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/init' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/init' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/misc' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/misc' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/misc' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/misc' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/pt2pt' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/pt2pt' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/pt2pt' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/pt2pt' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/rma' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/rma' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/rma' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/rma' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/spawn' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/spawn' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/spawn' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/spawn' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/timer' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/timer' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/timer' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/timer' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/topo' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/topo' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/topo' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/topo' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio' make mpiolib make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio' compiling ROMIO in directory mpi-io make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/mpi-io' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/mpi-io' compiling ROMIO in directory adio/common make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/common' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/common' compiling ROMIO in directory mpi-io/glue/mpich2 make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/mpi-io/glue/mpich2' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/mpi-io/glue/mpich2' compiling ROMIO in directory adio/ad_testfs make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/ad_testfs' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/ad_testfs' compiling ROMIO in directory adio/ad_ufs make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/ad_ufs' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/ad_ufs' compiling ROMIO in directory adio/ad_nfs make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/ad_nfs' make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/adio/ad_nfs' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio' building profiling interface in directory mpi-io make[5]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/mpi-io' ar cr /home/bob/mpich2-1.2.1p1/lib/libmpich.a _close.o _read.o _open.o _get_extent.o _write.o _set_view.o _seek.o _read_at.o _prealloc.o _iread.o _iwrite.o _get_posn.o _delete.o _read_all.o _get_bytoff.o _read_atall.o _iread_at.o _iwrite_at.o _get_group.o _get_amode.o _write_all.o _write_at.o _write_atall.o _get_view.o _fsync.o _get_atom.o _set_atom.o _set_size.o _get_size.o _file_f2c.o _file_c2f.o _set_info.o _get_info.o _rd_atallb.o _rd_atalle.o _read_allb.o _read_alle.o _wr_atallb.o _wr_atalle.o _write_allb.o _write_alle.o _get_posn_sh.o _iread_sh.o _read_sh.o _write_sh.o _iwrite_sh.o _seek_sh.o _read_ord.o _read_orde.o _write_ordb.o _read_ordb.o _write_ord.o _write_orde.o _register_datarep.o ranlib /home/bob/mpich2-1.2.1p1/lib/libmpich.a make[5]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio/mpi-io' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi/romio' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpi' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/mem' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/mem' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/info' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/info' make[4]: `.libstamp2' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/info' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/info' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/msgs' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/msgs' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/instrm' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/instrm' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/thread' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/thread' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/dbg' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/dbg' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/param' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/param' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/osserv' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/osserv' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/procmap' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/procmap' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/util/other' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util/other' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/util' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/nameserv' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/nameserv/mpd' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/nameserv/mpd' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/nameserv' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/binding' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/binding/f77' make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/binding/f77' make[4]: `.libstamp4' is up to date. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/binding/f77' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/binding/f77' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/binding/cxx' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/binding/cxx' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/binding' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/env' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/env' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/packaging' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/packaging/pkgconfig' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/packaging/pkgconfig' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/packaging/envmods' make[3]: Nothing to be done for `all'. make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/packaging/envmods' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/packaging' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpe2' make --no-print-directory build_lib_bin **** Making src/misc .... make --no-print-directory build_lib_bin make --no-print-directory mpe_debug_objs make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a /home/bob/mpich2-1.2.1p1/bin/mpicc -I.. -I../include -I../../.. -I../../../include -o dbxerr.po -c dbxerr.c dbxerr.c: In function ‘MPE_DefaultHandler’: dbxerr.c:429:1: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘{’ token dbxerr.c:459:1: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘{’ token dbxerr.c:408:6: error: argument ‘sig’ doesn’t match prototype dbxerr.c:407:6: error: prototype declaration dbxerr.c:475:1: error: expected ‘{’ at end of input Makefile:82: recipe for target `dbxerr.po' failed make[7]: *** [dbxerr.po] Error 1 Makefile:111: recipe for target `default' failed make[6]: *** [default] Error 2 Makefile:43: recipe for target `build_lib_bin' failed make[5]: *** [build_lib_bin] Error 2 Makefile:26: recipe for target `all' failed make[4]: *** [all] Error 2 **** Making src/callstack .... make --no-print-directory build_lib_bin make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/bin/check_callstack.exe make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/bin/check_callstack.exe' is up to date. **** Making src/logging .... make --no-print-directory build_lib_bin make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi_null.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi_null.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_null.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_null.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/bin/clog2_print.exe /home/bob/mpich2-1.2.1p1/src/mpe2/bin/clog2_join.exe /home/bob/mpich2-1.2.1p1/src/mpe2/bin/clog2_repair.exe make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/bin/clog2_print.exe' is up to date. make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/bin/clog2_join.exe' is up to date. make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/bin/clog2_repair.exe' is up to date. **** Making src/wrappers .... make --no-print-directory build_lib_bin make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/liblmpe.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/liblmpe.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libtmpe.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libtmpe.a' is up to date. make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_f2cmpi.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/mpe_prof.o make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/mpe_prof.o' is up to date. make --no-print-directory linktest_all make --no-print-directory linktest_C make --no-print-directory linktest_F77 **** Making src/graphics .... make --no-print-directory build_lib_bin make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_nompi.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe.a' is up to date. make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libampe.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libampe.a' is up to date. make --no-print-directory linktest_all make --no-print-directory linktest_C make --no-print-directory linktest_F77 **** Making src/collchk .... make --no-print-directory build_lib_bin make --no-print-directory /home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_collchk.a make[7]: `/home/bob/mpich2-1.2.1p1/src/mpe2/lib/libmpe_collchk.a' is up to date. make --no-print-directory linktest_all make --no-print-directory linktest_C make --no-print-directory linktest_F77 **** Making src/slog2sdk .... make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpe2' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pmi' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pmi/simple' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pmi/simple' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pmi' make[2]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm/mpd' gcc -I. -I. -DNDEBUG -O2 -c mpdroot.c gcc -DNDEBUG -O2 -lrt -o mpdroot mpdroot.o -lpthread make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm/mpd' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm/hydra' Making all in ../../mpl make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/mpl' make[4]: Nothing to be done for `all'. make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/mpl' Making all in . make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm/hydra' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm/hydra' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm/hydra' make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm/gforker' cd ../util && make make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm/util' make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm/util' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm/gforker' make all-postamble make[3]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm' if [ -n "mpd" -a -d "mpd" ] ; then \ build_prefix=`cd ../.. && pwd` && cd mpd && \ make prefix=$build_prefix exec_prefix=$build_prefix bindir=$build_prefix/bin mpich2-build-install ; \ fi make[4]: Entering directory `/home/bob/mpich2-1.2.1p1/src/pm/mpd' /usr/bin/install -c -m 644 ./mpdroot.c mpich2-mpdroot.c gcc -I. -I. -DNDEBUG -O2 -c mpich2-mpdroot.c rm -f mpich2-mpdroot.c gcc -DNDEBUG -O2 -lrt -o mpich2-mpdroot mpich2-mpdroot.o -lpthread rm -f mpich2-mpdroot.o copying python files/links into /home/bob/mpich2-1.2.1p1/bin rm -f mpich2-mpdroot make[4]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm/mpd' make[3]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm' make[2]: Leaving directory `/home/bob/mpich2-1.2.1p1/src/pm' make[1]: Leaving directory `/home/bob/mpich2-1.2.1p1/src' make[1]: Entering directory `/home/bob/mpich2-1.2.1p1/examples' ../bin/mpicc -o cpi cpi.o -lm make[1]: Leaving directory `/home/bob/mpich2-1.2.1p1/examples' make all-postamble make[1]: Entering directory `/home/bob/mpich2-1.2.1p1' Make completed make[1]: Leaving directory `/home/bob/mpich2-1.2.1p1 then I do make install and I got some problem: if [ ! -d /usr/home/bob/mpich2-1.2.1-install ] ; then mkdir -p /usr/home/bob/mpich2-1.2.1-install ; fi if [ ! -d /usr/home/bob/mpich2-1.2.1-install/share ] ; then mkdir -p /usr/home/bob/mpich2-1.2.1-install/share ; fi if [ ! -d /usr/home/bob/mpich2-1.2.1-install/share/doc/ ] ; then mkdir -p /usr/home/bob/mpich2-1.2.1-install/share/doc/ ; fi if [ ! -d /usr/home/bob/mpich2-1.2.1-install/share/man ] ; then mkdir -p /usr/home/bob/mpich2-1.2.1-install/share/man ; fi if [ ! -d /usr/home/bob/mpich2-1.2.1-install/include ] ; then mkdir -p /usr/home/bob/mpich2-1.2.1-install/include ; fi *if [ ! -d //usr/local/lib/pkgconfig ] ; then mkdir -p //usr/local/lib/pkgconfig ; fi* * * *mkdir: cannot create directory `//usr': Read-only file system* Makefile:194: recipe for target `install' failed make: *** [install] Error 1 any help will be very appreciated!!! I wish to hear from you Angelo Angelo Paone *********************************************** Research Professor Post-Doctoral Research Fellow Marie Curie Fellow PhD, MSc, BSc Pusan Natioanl University Department of Earth Science 30, Jangjeon-dong, Geumjeong-gu Busan, Republic of Korea Tel. +82-51-510-2987

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uninstall mpich2-1.2.1p1 from cygwin
by Angelo Paone 20 Feb '13

20 Feb '13

Dear MPICH mailing list, I have installed the following version of MPICH2 V. 1.2.1p1 downloading and unzipping the package mpich2-1.2.1p1.tar.gz<http://www.mpich.org/static/tarballs/1.2.1p1/mpich2-1.2.1p1.tar.gz> in cygwin, now I would like to uninstall it, I undenstand that in cygwin the single packake are uninstalled using the setup.exe command, but for MPICH package, I can not use this method, should I use the remove command?? Any help will greatly appreciated!!! Best wishes Angelo Angelo Paone *********************************************** Research Professor Post-Doctoral Research Fellow Marie Curie Fellow PhD, MSc, BSc Pusan Natioanl University Department of Earth Science 30, Jangjeon-dong, Geumjeong-gu Busan, Republic of Korea Tel. +82-51-510-2987

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