June 2009 - Mg-rast - mailman3.cels.anl.gov

Re: [mg-rast] Your MG-RAST submission (3892)
by dsouza＠mcs.anl.gov 30 Jun '09

30 Jun '09

Hi Ulrich, Sorry about that, you would only be able to delete the jobs after the first stage of processing completed, and the jobs failed at this stage. I deleted versions 1-3 (3892, 3899, 3905), version 4 (3946) is queued for computation. No apology needed, glad we could work things out and get this job running, I hope you will find MG-RAST useful. Mark ----- "Ulrich Melcher" <ulrich.melcher(a)okstate.edu> wrote: > From: "Ulrich Melcher" <ulrich.melcher(a)okstate.edu> > To: dsouza(a)mcs.anl.gov > Sent: Monday, June 29, 2009 4:26:36 PM GMT -06:00 US/Canada Central > Subject: Re: Your MG-RAST submission (3892) > > Many thanks for your assistance and my apologies for the sorry state > > of the original file. > Version 4 has now passed the test and is being processed. > I can see how I can delete version 4 (which I do not want to do). > When I apply the same strategy to versions 1-3, I am greeted with : > "An error has occured: > > Sorry, but you are lacking the rights required for this page. > > To continue please go back to the start page." > > So, I am unable to delete jobs 3892, 3899, and 3905 > > Ulrich Melcher, Robert J. Sirny Prof. of Agricultural Biochemistry > and Regents' Professor > Department of Biochemistry and Molecular Biology > 246 NRC, Oklahoma State University > Stillwater OK 74078-3035 USA > Tel: 405-744-6210 FAX: 405-744-7799 > e-mail: ulrich.melcher(a)okstate.edu > permanent e-mail: u-melcher-4(a)alumni.uchicago.edu > http://bioinfosu.okstate.edu/UM/UM.html > > > > > On 29/06/2009, at 12.12, dsouza(a)mcs.anl.gov wrote: > > > Hi Ulrich, > > > > The latest job you submitted (3905) still has two header lines > > which do not begin on new lines: > > > > 411932 >v69.48 > > 411933 GGGGGCAGGGGGGGTCAGGAGCTACTGACTGG > > ... > > 411950 AGGCTTTCCAAGGACCAAAAATTGAGCCGTCATTAACTTTGTATTGGGAA > > 411951 A>v69.49 > > 411952 AAGGTGGTCAAATTAAGTTAGAATTTAAA > > ... > > > > and > > > > 412899 >v62.24 > > 412900 TAGAGTGTAGTGGGTTTTGATTACAGCTCCTG > > ... > > 412909 GATATTAACTTTTATACTGGAGATATGAAAAACATAATTTAATTACTCTG > > 412910 GGG>v62.25 > > 412911 CATCACAGTAATA > > ... > > > > There are also a large number of sequences which have non-IUPAC > > characters, eg. > >> vj57.: bad char '4' > > > 4cTCCGTACTTCGATTCTCCTCCCCTCTTACCCTCTGGCGCTAGTGGTCACCCCTTTTCCCTCCGCGCGG > > > TACT > > > >> vijay15.: bad char '36' > > > 36CCACGACAATTGGACCCTAAGCTCATGTTTTCATGTTTTTCTTTCTATTTGGGTGCATTTGGGACCAT > > > TATGCTACTG > > > > where the digits are not accepted, and > > 354538 >v47.1 > > 354539 NNTTAAGTTATGCAGCTGTGTAXXXXXXXXXXXXXXXXXXXXXXXXXXXX > > 354540 XXXXXXXXXXXXXCCCCCTTCCTGAATTCTGATCCTCCTCGTCTGGGGTT > > > > where the 'X's are not accepted. MG-RAST can only process sequence > > > data containing IUPAC-standard compliant nucleotide and nucleotide > > > ambiguity characters. See <http://www.chem.qmul.ac.uk/iubmb/misc/ > > naseq.html#500> for a list of valid IUPAC nucleotide characters. > > Changing the 'X's to 'N's should fix this. A small number of non- > > IUPAC characters in the sequence data will be converted to 'N's > > without causing the job to fail. > > > > You can delete a job by going to the job 'details' page, one of the > > > options in the green menu bar is 'delete this job'. > > > > Regards, > > Mark D'Souza > > -- for the MG-RAST team > > > > mg-rast(a)mcs.anl.gov > > http://metagenomics.nmpdr.org/ > > > > > > > > > > > > ----- "Ulrich Melcher" <ulrich.melcher(a)okstate.edu> wrote: > > > >> From: "Ulrich Melcher" <ulrich.melcher(a)okstate.edu> > >> To: dsouza(a)mcs.anl.gov > >> Sent: Monday, June 29, 2009 8:55:55 AM GMT -06:00 US/Canada > Central > >> Subject: Re: Your MG-RAST submission (3892) > >> > >> I corrected the errors you mentioned below, but still had a failed > >> file. > >> I tried the file in formatdb and was alerted to additional errors. > I > >> > >> corrected those also. > >> The formatdb acceptable file was, however, still not acceptable to > > >> MG- > >> > >> RAST. > >> > >> The main reason for this message, though, is wanting instruction > as > >> to how to remove the failed submissions from your server and my > list > >> > >> of submissions. > >> > >> Peace, > >> Ulrich Melcher > >> > >> > >> > >> > >> On 26/06/2009, at 17.24, dsouza(a)mcs.anl.gov wrote: > >> > >>> Hi, > >>> > >>> The job you submitted to MG-RAST has failed as the sequence file > >>> doe not conform to the fasta standard, it has multiple sequence > ID > >> > >>> (header) lines which do not begin on a new line, e.g. > >>>> p01_05TGP00060_AGTG.8 > >>> > >> > tCGGTGCAGATCTTGGTGGTAGTAGcAAATATTCAAATGAGAACTTTGAAGGCcGAAGAGGAGAAAGGT > > >> T > >> > >>> CCATG > >>> > >> > TGAACGGCACTTGCACATGGGTAAGCCGATCCTAAGGgACGGGGTAACCCCGGCAGATAGCGCGATCAC > > >> G > >> > >>> CGCATCCCCC > >>> > >> > GAAAGGGAATCGGGTTAAGATTTCCCGAGCCGGGATGTGGCGGTTGACGGCGACGTTAGGAAGTCCGGA > > >> G > >> > >>> ACGCCGGCGG > >>> > >> > GGGCCTCGGGAAGAGTTATCTTTTCTGCTTAACGGCCTGCCAACCCTGGAATCGGTTCAGCCGGAGGTA > > >> G > >> > >>> GGTCCAGTGG > >>> > >> > TCGGAAGAGCACCGCACGTCGCGCGGTGTCCGGTGCGCCCCCGGCGGCCCATGAAAATCCGGAGGACCG > > >> A > >> > >>> GTACCGTCCA > >>> > >> > CGCCCGGTCGTACTCATAACCGCATCAGGTCTCCAAGGTGAACAGCCTCTGGCCAATGGAACAATGTAG > > >> G > >> > >>> CAAGGGAAGT > >>> CGGCAaaCGGATCCGTAACTTCGGgAAAAggtA >p01_05TGP00060_AGTG.9 > >>> > >> > GTTACAGCAGTTATCCTCTCCGCACTTGGCTACCCAGCGTTTACCGTAGGCACGATAACTGGTACACCA > > >> G > >> > >>> AGGTGCGTCC > >>> > >> > TTCCCGGTCCTCTCGTACTAGGGAAAGGTCCTCTCAATGCTCTAACGCCCACATCAGGTACGGAGgATC > > >> C > >> > >>> GAAGGCACT > >>>> p01_05TGP00060_AGTG.10 > >>> > >> > TCAGGCGGCACCAGTCTAGAGGCGGTTCATACAACACTGGTGTAAaCcAAGGCAGAAACCATGgTCCAG > > >> C > >> > >>> CcATGGTCAC > >>> > >> > CACCAAAGTCAGGGAGGAAgCAGGGgTGATGACCCCcACCATGCCGGAGCAATCAAGATGACAACaCAC > > >> A > >> > >>> GCcTCCGCCT > >>> > >> > TGGCGACGGGGAAAtCGTGAAAaCAaCGAGAAACCTCCGCcTAAGTGCCACACGCCAAGCCCTCGCaGA > > >> G > >> > >>> GACtACTAGG > >>> A >p01_05TGP00060_AGTG.11 > >>> > >> > cAATAGgATCagaaTCCTATAaTGTTATCCCATGCtAATGTATCCAGAGCGTAGgCTTgCTTTGAGCAC > > >> T > >> > >>> CTAATTTCTt > >>> > >> > CAAAGtAACAgCGCcGGAGgCACGaCCcGGCCAgTTAAGGCCAGGAGCGcATCGCCGGcAGAAGGGACG > > >> A > >> > >>> GCCGACCGGT > >>> GCACACcGGAGGCGgACCgATCgACCCAg >p01_05TGP00060_AGTG.12 > >>> > >> > GGACTACCCGCTGAGTTTAAGCATATAAATAAGCGGAGGAGAAGAAACTTACAAGGATTCCCCTAGTAA > > >> C > >> > >>> GGCGAGCGAA > >>> > >> > CcGGGAGCAGCCCAGCTTGAGAATCGGGCGGCCGTGCCGTTCGAATTGTAGTCTGGAGAGGCGTCCTCA > > >> G > >> > >>> CGACGGACCG > >>> > >> > GGCCcAAGTCCCCTGGAAaGGGgCgCCTGGGAGGGTGAGAGCCCCGTCcTGCCCGGaCCCTGTCGCCCC > > >> A > >> > >>> cGAGGCGCcG > >>> TCAAcGaGTCGGGTTgTTGGGAtGCAGCCcAAG >p01_05TGP00060_AGTG.13 > >>> > >> > GGCACTCGCCCAGATGGCCGGGTGTGGGTCGCGCGCTTCAGCGCCATCCATTTTCGGGGCTAGTTGATT > > >> C > >> > >>> GGCAGGTGAG > >>> > >> > TTGTTACACACTCCTTAGCGGATTTCGACTTCCATGACCACCGTCCTGCTGTCTTAATCGACCAACACC > > >> C > >> > >>> TTTGTGGGTT > >>> > >> > CTAGGTTAGCGCGCAGTTGGGCACCGTAACCCGGCTTCCGGTTCATCCCGCATCGCCAGTTCTGCTTAC > > >> C > >> > >>> AAAAATGGCC > >>> CA... > >>> > >>> In addition, there are special characters included in the > sequence > >> > >>> data, e.g. > >>>> v65.32 > >>> TCATCGGGATTTCTGCACCCTTCTCATTAGCC > >>> AGAACTTGGTCACCTGTTACCGTTTCTGGCTACTAGAAAGCTTGGAATTT > >>> TAGTATTCTGCACCTAGGATGTACTTTGGTCAAGGTAAGAAAGAAAAATA > >>> CGATTTGTGTATTTGTGCCATCTGTGGTATTTTCCACACATGTATATAGA > >>> TCCTTTTAAAAGAAACATATACTTTAACTAAATATGCAAGAGTGCAGCAA > >>> ATAGTCTGCAATTATAAAATGAAATAAGTCTGTTATGACCCAGCCTTCAT > >>> AATAACTAAAATTATAGCCATGTTACTCATAGAACTGACAAGTGTCTTTC > >>> CATTCACATATAATTGTTTCATGTCCGAATTATGTGCCGTGACACATATC > >>> AAGTAATACACATGTTCTACATTTAGACATTTGTATATTTAATCCATATT > >>> CCCAAAATGACTCCATCAGATATTAACTATAATTATCCCATTTTACAGAT > >>> GAGGGACTTGGGGATAGTTATGCATTTTATCGCAAGACACAATGGGAAGT > >>> AGCTGAGTCTGAATTTAAACCCAGCTGGTCAGGTTCCAGAGCTTGTGCTC > >>> TTAATCACCTGCTATGAGCCCTTTCATTAAATATACAATTGCATAAATGA > >>> GAAATTCAATTTGGTCAGGCATAGTGGCTCACACCTGTAATCCCAACACT > >>> TTGGGAGGCCGAGGTGGGCAGATCACTTGAGCCCAGGAGTTTGAGACCGC > >>> CTGCACAT > >>> ^@>^@v^@6^@0^@.^@C^@o^@n^@t^@i^@g^@1^@ > >>> > >> > ^@T^@G^@G^@C^@A^@G^@T^@C^@A^@G^@A^@G^@G^@C^@G^@A^@T^@G^@A^@A^@G^@G^@A > > >> ^ > >> > >>> @C^@G^@T^@G^@C^@T^@A^@A^@T^@C^@T^@G^@ > >>> > >> > ^@C^@G^@A^@T^@A^@A^@G^@C^@G^@T^@C^@G^@G^@T^@G^@A^@G^@G^@T^@G^@A^@T^@A > > >> ^ > >> > >>> > >> > @T^@G^@A^@A^@C^@C^@G^@T^@T^@A^@T^@A^@A^@C^@C^@G^@G^@C^@G^@A^@T^@T^@T^ > > >> @ > >> > >>> C^@C^@G^@A^@ > >>> > >> > ^@A^@T^@G^@G^@G^@G^@A^@A^@A^@C^@C^@C^@A^@G^@T^@G^@T^@G^@A^@T^@T^@C^@G > > >> ^ > >> > >>> > >> > @T^@C^@A^@C^@A^@C^@T^@A^@T^@C^@A^@T^@T^@A^@A^@C^@T^@G^@A^@A^@T^@C^@C^ > > >> @ > >> > >>> A^@T^@A^@G^@ > >>> > >> > ^@G^@T^@T^@A^@A^@T^@G^@A^@G^@G^@C^@G^@A^@A^@C^@C^@G^@G^@G^@G^@G^@A^@A > > >> ^ > >> > >>> > >> > @C^@T^@G^@A^@A^@A^@C^@A^@T^@C^@T^@A^@A^@G^@T^@A^@C^@C^@C^@C^@G^@A^@G^ > > >> @ > >> > >>> G^@A^@A^@A^@ > >>> > >> > ^@A^@G^@A^@A^@A^@T^@C^@A^@A^@C^@C^@G^@A^@G^@A^@T^@T^@C^@C^@C^@C^@C^@A > > >> ^ > >> > >>> > >> > @G^@T^@A^@G^@C^@G^@G^@C^@G^@A^@G^@C^@G^@A^@A^@C^@G^@G^@G^@G^@A^@G^@G^ > > >> @ > >> > >>> A^@G^@C^@C^@ > >>> ^@C^@A^@T^@A^@G^@C^@C^@T^@G^@ > >>> > >> > ^@A^@A^@T^@C^@A^@G^@T^@G^@T^@G^@T^@G^@T^@G^@T^@T^@A^@G^@T^@G^@G^@A^@A > > >> ^ > >> > >>> @G^@C^@G^@T^@C^@T^@ > >>> > >>> > >>> Please edit your sequence file to plain ASCII text in fasta > format > >> > >>> and resubmit it to the MG-RAST server. > >>> > >>> > >>> Regards, > >>> Mark D'Souza > >>> -- for the MG-RAST team > >>> > >>> mg-rast(a)mcs.anl.gov > >>> http://metagenomics.nmpdr.org/ -- Regards, Mark D'Souza -- for the MG-RAST team mg-rast(a)mcs.anl.gov http://metagenomics.nmpdr.org/

1 0

Your MG-RAST jobs (3949, 3950, 3951, 3952)
by dsouza＠mcs.anl.gov 30 Jun '09

30 Jun '09

Hi, The jobs you submitted to MG-RAST have failed due to the entry having ID 'Empty' which does not have a sequence attached. e.g. for 3949: >scu|FishHealGutKentSTVir20060504_15476 AATATGAAATAAAAATATTATAAGGAATAATAATGGGAAAAATAGTTTTTATAGATGATAATTTTAGTAGTCTTACATTGAAAGAATGTTTAGAAGAAAGTCAAGGTGAAATTTCACAAGTAG >Empty >scu|FishHealGutKentSTVir20060504_37689 TCTATCATTTGTTTTTCCTTTGTGTTAAAAATTCTATCATTTTTTAACTAATTTTATTATATCACTAAATTTTTTAAAGTAAAATATTTGTTATAATAT Please edit your sequence files to remove these sequences and resubmit the jobs to MG-RAST. Regards, Mark D'Souza -- for the MG-RAST team mg-rast(a)mcs.anl.gov http://metagenomics.nmpdr.org/

1 0

Your MG-RAST job (3909)
by dsouza＠mcs.anl.gov 30 Jun '09

30 Jun '09

Hi, The job you submitted to MG-RAST (3909, Earthworm_1) has failed due to a formatting isssue in the sequence file. There are a number of ID lines which do not have sequences, identified by the 'length=0' in the ID line, e.g. >FW61IOL01AMNS4 length=0 xy=0140_3958 region=1 run=R_2009_06_08_13_38_38_ which is causing our fasta checker script to complain. Please remove these ID lines and resubmit your job to the MG-RAST server. Thanks, Mark D'Souza -- for the MG-RAST team mg-rast(a)mcs.anl.gov http://metagenomics.nmpdr.org/

1 0

Your MG-RAST job (3922)
by Mark D'Souza 30 Jun '09

30 Jun '09

Hi, The MG-RAST job you submitted (3922, Aker8_p_V1V2) failed during the upload process and cannot be revived. I believe this was caused by the sequence filename not having an extension (.fna, .fasta). Please rename the file and resubmit. Regards, Mark D'Souza -- for the MG-RAST team mg-rast(a)mcs.anl.gov http://metagenomics.nmpdr.org/

1 0

Your MG-RAST jobs (3878, 3879)
by dsouza＠mcs.anl.gov 29 Jun '09

29 Jun '09

Hi, Two of your MG-RAST jobs 3878 (GS047) and 3879 (GOS048b) have failed for reasons which are not clear, the submission process seems to have failed during upload and these jobs cannot be restarted. It looks like you resubmitted these two jobs as 3882 and 3883, if this is the case, the two failed jobs should be deleted. You can do this from the job 'details' page, the green menu bar has a drop-down option to 'delete this job'. We have precomputed publicly available jobs for the Global Ocean Sampling Expedition (GOS) metagenome data which can be found by searching the public metagenomes on the MG-RAST front page. If these are the sequence sets you are running we would prefer you use the public jobs instead as MG-RAST is running on limited resources and we have a large backlog of jobs queued behind yours. If you would like to view the sequence data the public jobs sequence files are available for download. Feel free to contact me if you have any questions about the public metagenomes. Regards, Mark D'Souza -- for the MG-RAST team mg-rast(a)mcs.anl.gov http://metagenomics.nmpdr.org/

1 0

Re: [mg-rast] Your MG-RAST submission (3892)
by dsouza＠mcs.anl.gov 29 Jun '09

29 Jun '09

Hi Ulrich, The latest job you submitted (3905) still has two header lines which do not begin on new lines: 411932 >v69.48 411933 GGGGGCAGGGGGGGTCAGGAGCTACTGACTGG ... 411950 AGGCTTTCCAAGGACCAAAAATTGAGCCGTCATTAACTTTGTATTGGGAA 411951 A>v69.49 411952 AAGGTGGTCAAATTAAGTTAGAATTTAAA ... and 412899 >v62.24 412900 TAGAGTGTAGTGGGTTTTGATTACAGCTCCTG ... 412909 GATATTAACTTTTATACTGGAGATATGAAAAACATAATTTAATTACTCTG 412910 GGG>v62.25 412911 CATCACAGTAATA ... There are also a large number of sequences which have non-IUPAC characters, eg. >vj57.: bad char '4' 4cTCCGTACTTCGATTCTCCTCCCCTCTTACCCTCTGGCGCTAGTGGTCACCCCTTTTCCCTCCGCGCGGTACT >vijay15.: bad char '36' 36CCACGACAATTGGACCCTAAGCTCATGTTTTCATGTTTTTCTTTCTATTTGGGTGCATTTGGGACCATTATGCTACTG where the digits are not accepted, and 354538 >v47.1 354539 NNTTAAGTTATGCAGCTGTGTAXXXXXXXXXXXXXXXXXXXXXXXXXXXX 354540 XXXXXXXXXXXXXCCCCCTTCCTGAATTCTGATCCTCCTCGTCTGGGGTT where the 'X's are not accepted. MG-RAST can only process sequence data containing IUPAC-standard compliant nucleotide and nucleotide ambiguity characters. See <http://www.chem.qmul.ac.uk/iubmb/misc/naseq.html#500> for a list of valid IUPAC nucleotide characters. Changing the 'X's to 'N's should fix this. A small number of non-IUPAC characters in the sequence data will be converted to 'N's without causing the job to fail. You can delete a job by going to the job 'details' page, one of the options in the green menu bar is 'delete this job'. Regards, Mark D'Souza -- for the MG-RAST team mg-rast(a)mcs.anl.gov http://metagenomics.nmpdr.org/ ----- "Ulrich Melcher" <ulrich.melcher(a)okstate.edu> wrote: > From: "Ulrich Melcher" <ulrich.melcher(a)okstate.edu> > To: dsouza(a)mcs.anl.gov > Sent: Monday, June 29, 2009 8:55:55 AM GMT -06:00 US/Canada Central > Subject: Re: Your MG-RAST submission (3892) > > I corrected the errors you mentioned below, but still had a failed > file. > I tried the file in formatdb and was alerted to additional errors. I > > corrected those also. > The formatdb acceptable file was, however, still not acceptable to MG- > > RAST. > > The main reason for this message, though, is wanting instruction as > to how to remove the failed submissions from your server and my list > > of submissions. > > Peace, > Ulrich Melcher > > > > > On 26/06/2009, at 17.24, dsouza(a)mcs.anl.gov wrote: > > > Hi, > > > > The job you submitted to MG-RAST has failed as the sequence file > > doe not conform to the fasta standard, it has multiple sequence ID > > > (header) lines which do not begin on a new line, e.g. > >> p01_05TGP00060_AGTG.8 > > > tCGGTGCAGATCTTGGTGGTAGTAGcAAATATTCAAATGAGAACTTTGAAGGCcGAAGAGGAGAAAGGTT > > > CCATG > > > TGAACGGCACTTGCACATGGGTAAGCCGATCCTAAGGgACGGGGTAACCCCGGCAGATAGCGCGATCACG > > > CGCATCCCCC > > > GAAAGGGAATCGGGTTAAGATTTCCCGAGCCGGGATGTGGCGGTTGACGGCGACGTTAGGAAGTCCGGAG > > > ACGCCGGCGG > > > GGGCCTCGGGAAGAGTTATCTTTTCTGCTTAACGGCCTGCCAACCCTGGAATCGGTTCAGCCGGAGGTAG > > > GGTCCAGTGG > > > TCGGAAGAGCACCGCACGTCGCGCGGTGTCCGGTGCGCCCCCGGCGGCCCATGAAAATCCGGAGGACCGA > > > GTACCGTCCA > > > CGCCCGGTCGTACTCATAACCGCATCAGGTCTCCAAGGTGAACAGCCTCTGGCCAATGGAACAATGTAGG > > > CAAGGGAAGT > > CGGCAaaCGGATCCGTAACTTCGGgAAAAggtA >p01_05TGP00060_AGTG.9 > > > GTTACAGCAGTTATCCTCTCCGCACTTGGCTACCCAGCGTTTACCGTAGGCACGATAACTGGTACACCAG > > > AGGTGCGTCC > > > TTCCCGGTCCTCTCGTACTAGGGAAAGGTCCTCTCAATGCTCTAACGCCCACATCAGGTACGGAGgATCC > > > GAAGGCACT > >> p01_05TGP00060_AGTG.10 > > > TCAGGCGGCACCAGTCTAGAGGCGGTTCATACAACACTGGTGTAAaCcAAGGCAGAAACCATGgTCCAGC > > > CcATGGTCAC > > > CACCAAAGTCAGGGAGGAAgCAGGGgTGATGACCCCcACCATGCCGGAGCAATCAAGATGACAACaCACA > > > GCcTCCGCCT > > > TGGCGACGGGGAAAtCGTGAAAaCAaCGAGAAACCTCCGCcTAAGTGCCACACGCCAAGCCCTCGCaGAG > > > GACtACTAGG > > A >p01_05TGP00060_AGTG.11 > > > cAATAGgATCagaaTCCTATAaTGTTATCCCATGCtAATGTATCCAGAGCGTAGgCTTgCTTTGAGCACT > > > CTAATTTCTt > > > CAAAGtAACAgCGCcGGAGgCACGaCCcGGCCAgTTAAGGCCAGGAGCGcATCGCCGGcAGAAGGGACGA > > > GCCGACCGGT > > GCACACcGGAGGCGgACCgATCgACCCAg >p01_05TGP00060_AGTG.12 > > > GGACTACCCGCTGAGTTTAAGCATATAAATAAGCGGAGGAGAAGAAACTTACAAGGATTCCCCTAGTAAC > > > GGCGAGCGAA > > > CcGGGAGCAGCCCAGCTTGAGAATCGGGCGGCCGTGCCGTTCGAATTGTAGTCTGGAGAGGCGTCCTCAG > > > CGACGGACCG > > > GGCCcAAGTCCCCTGGAAaGGGgCgCCTGGGAGGGTGAGAGCCCCGTCcTGCCCGGaCCCTGTCGCCCCA > > > cGAGGCGCcG > > TCAAcGaGTCGGGTTgTTGGGAtGCAGCCcAAG >p01_05TGP00060_AGTG.13 > > > GGCACTCGCCCAGATGGCCGGGTGTGGGTCGCGCGCTTCAGCGCCATCCATTTTCGGGGCTAGTTGATTC > > > GGCAGGTGAG > > > TTGTTACACACTCCTTAGCGGATTTCGACTTCCATGACCACCGTCCTGCTGTCTTAATCGACCAACACCC > > > TTTGTGGGTT > > > CTAGGTTAGCGCGCAGTTGGGCACCGTAACCCGGCTTCCGGTTCATCCCGCATCGCCAGTTCTGCTTACC > > > AAAAATGGCC > > CA... > > > > In addition, there are special characters included in the sequence > > > data, e.g. > >> v65.32 > > TCATCGGGATTTCTGCACCCTTCTCATTAGCC > > AGAACTTGGTCACCTGTTACCGTTTCTGGCTACTAGAAAGCTTGGAATTT > > TAGTATTCTGCACCTAGGATGTACTTTGGTCAAGGTAAGAAAGAAAAATA > > CGATTTGTGTATTTGTGCCATCTGTGGTATTTTCCACACATGTATATAGA > > TCCTTTTAAAAGAAACATATACTTTAACTAAATATGCAAGAGTGCAGCAA > > ATAGTCTGCAATTATAAAATGAAATAAGTCTGTTATGACCCAGCCTTCAT > > AATAACTAAAATTATAGCCATGTTACTCATAGAACTGACAAGTGTCTTTC > > CATTCACATATAATTGTTTCATGTCCGAATTATGTGCCGTGACACATATC > > AAGTAATACACATGTTCTACATTTAGACATTTGTATATTTAATCCATATT > > CCCAAAATGACTCCATCAGATATTAACTATAATTATCCCATTTTACAGAT > > GAGGGACTTGGGGATAGTTATGCATTTTATCGCAAGACACAATGGGAAGT > > AGCTGAGTCTGAATTTAAACCCAGCTGGTCAGGTTCCAGAGCTTGTGCTC > > TTAATCACCTGCTATGAGCCCTTTCATTAAATATACAATTGCATAAATGA > > GAAATTCAATTTGGTCAGGCATAGTGGCTCACACCTGTAATCCCAACACT > > TTGGGAGGCCGAGGTGGGCAGATCACTTGAGCCCAGGAGTTTGAGACCGC > > CTGCACAT > > ^@>^@v^@6^@0^@.^@C^@o^@n^@t^@i^@g^@1^@ > > > ^@T^@G^@G^@C^@A^@G^@T^@C^@A^@G^@A^@G^@G^@C^@G^@A^@T^@G^@A^@A^@G^@G^@A^ > > > @C^@G^@T^@G^@C^@T^@A^@A^@T^@C^@T^@G^@ > > > ^@C^@G^@A^@T^@A^@A^@G^@C^@G^@T^@C^@G^@G^@T^@G^@A^@G^@G^@T^@G^@A^@T^@A^ > > > > @T^@G^@A^@A^@C^@C^@G^@T^@T^@A^@T^@A^@A^@C^@C^@G^@G^@C^@G^@A^@T^@T^@T^@ > > > C^@C^@G^@A^@ > > > ^@A^@T^@G^@G^@G^@G^@A^@A^@A^@C^@C^@C^@A^@G^@T^@G^@T^@G^@A^@T^@T^@C^@G^ > > > > @T^@C^@A^@C^@A^@C^@T^@A^@T^@C^@A^@T^@T^@A^@A^@C^@T^@G^@A^@A^@T^@C^@C^@ > > > A^@T^@A^@G^@ > > > ^@G^@T^@T^@A^@A^@T^@G^@A^@G^@G^@C^@G^@A^@A^@C^@C^@G^@G^@G^@G^@G^@A^@A^ > > > > @C^@T^@G^@A^@A^@A^@C^@A^@T^@C^@T^@A^@A^@G^@T^@A^@C^@C^@C^@C^@G^@A^@G^@ > > > G^@A^@A^@A^@ > > > ^@A^@G^@A^@A^@A^@T^@C^@A^@A^@C^@C^@G^@A^@G^@A^@T^@T^@C^@C^@C^@C^@C^@A^ > > > > @G^@T^@A^@G^@C^@G^@G^@C^@G^@A^@G^@C^@G^@A^@A^@C^@G^@G^@G^@G^@A^@G^@G^@ > > > A^@G^@C^@C^@ > > ^@C^@A^@T^@A^@G^@C^@C^@T^@G^@ > > > ^@A^@A^@T^@C^@A^@G^@T^@G^@T^@G^@T^@G^@T^@G^@T^@T^@A^@G^@T^@G^@G^@A^@A^ > > > @G^@C^@G^@T^@C^@T^@ > > > > > > Please edit your sequence file to plain ASCII text in fasta format > > > and resubmit it to the MG-RAST server. > > > > > > Regards, > > Mark D'Souza > > -- for the MG-RAST team > > > > mg-rast(a)mcs.anl.gov > > http://metagenomics.nmpdr.org/

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Re: [mg-rast] disk full
by Folker Meyer 29 Jun '09

29 Jun '09

is the queue back on? I mean the jobs set to run state again? Folker On Jun 29, 2009, at 10:45 AM, Jared Wilkening wrote: > Fixed. > > Jared > > On Sun, Jun 28, 2009 at 7:09 AM, Robert Olson <olson(a)mcs.anl.gov> > wrote: > the mgrast jobs disk is full; bunch of stuff failed overnight. I did > a 'qhold -u mgrastprod' to keep more from failing. > > > --bob >

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Re: [mg-rast] disk full
by Jared Wilkening 29 Jun '09

29 Jun '09

Fixed. Jared On Sun, Jun 28, 2009 at 7:09 AM, Robert Olson <olson(a)mcs.anl.gov> wrote: > the mgrast jobs disk is full; bunch of stuff failed overnight. I did a > 'qhold -u mgrastprod' to keep more from failing. > > > --bob >

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All porn tubes in one website
by tv69xxl.com 28 Jun '09

28 Jun '09

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disk full
by Robert Olson 28 Jun '09

28 Jun '09

the mgrast jobs disk is full; bunch of stuff failed overnight. I did a 'qhold -u mgrastprod' to keep more from failing. --bob

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