April 2011 - Mg-rast - mailman3.cels.anl.gov

Re: [mg-rast] problem with processing/uploading
by Jared Wilkening 02 Apr '11

02 Apr '11

Tanya, They is a bug in the system currently that if you reload the browser page immediately after uploading it resubmits it. Should be fixed shortly and we will clear out the cases that it has happend. The one having a error is likely due to some transient problems we have been working through with the new system. Cheers, Jared Wilkening - for the MG-RAST Development Team On Sat, Apr 2, 2011 at 10:21 AM, Tanya Yatsunenko <yata(a)go.wustl.edu> wrote: > Hello again > > Thanks for fixing the previous issue. I have another one now: when I > uploaded 2 metagenomes, on the 'browse metagenomes' page, 1 of them showed > up as 3 jobs. I'm not sure if it's just an error on the webpage, or it was > uploaded 2 or 3 times (although i pressed 'upload' only once). And there's > no option to cancel the jobs. > Interestingly, 1 of the duplicates shows an error (Finalizing data: error), > but I couldn't find where can I see an error and how to fix it. > > Thanks very much for your help. > > Tanya. > > > On Wed, Mar 30, 2011 at 1:41 PM, Andreas Wilke <wilke(a)mcs.anl.gov> wrote: > >> Hi Tanya , >> >> unfortunately we had to change the location of a logfile for our database. >> This required a restart of the database. This does not require a >> re-annotation of your metagenomes. >> >> Please let us know if you have still problems to access your metagenomes. >> >> Regards, >> >> Andreas Wilke >> >> >> >> On Mar 30, 2011, at 11:42 AM, Tanya Yatsunenko wrote: >> >> Hi >> >> I've used MG RAST long time ago, and still have several metagenomes >> uploaded. However, when I tried to open "DAta Analysis" tab, I got this >> message:Can't locate auto/DBI/error.al in @INC (@INC contains: >> /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib >> /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/FigKernelPackages >> /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/WebApplication >> /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/FortyEight >> /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/PPO >> /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/RAST >> /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/MGRAST >> /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/SeedViewer >> /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/ModelSEED >> /mcs/bio/mg-rast/prod/FIGDisk/dist/dev/common/lib >> /mcs/bio/mg-rast/prod/FIGDisk/dist/dev/common/lib/FigKernelPackages >> /mcs/bio/mg-rast/prod/FIGDisk/config >> /mcs/bio/mg-rast/test/FIGDisk/dist/releases/current/common/lib >> /mcs/bio/mg-rast/test/FIGDisk/dist/releases/current/common/lib/FigKernelPackages >> /mcs/bio/mg-rast/test/FIGDisk/dist/releases/current/common/lib/WebApplication >> /mcs/bio/mg-rast/test/FIGDisk/dist/releases/current/common/lib/FortyEight >> /mcs/bio/mg-rast/test/FIGDisk/dist/releases/current/common/lib/PPO >> /mcs/bio/mg-rast/test/FIGDisk/config >> /soft/packages/perl/5.12.1/lib/site_perl/5.12.1/x86_64-linux-thread-multi >> /soft/packages/perl/5.12.1/lib/site_perl/5.12.1 >> /soft/packages/perl/5.12.1/lib/5.12.1/x86_64-linux-thread-multi >> /soft/packages/perl/5.12.1/lib/5.12.1 .) at >> /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/Babel/lib/Babel.pm >> line 29 >> >> Does that mean that I have to re-annotate all my metagenomes, i.e. submit >> them as new jobs? >> Thank you >> >> Tanya. >> >> >> Andreas Wilke >> Argonne National Laboratory >> Mathematics and Computer Science Division >> Bldg. 240 , 4F8 >> 9700 South Cass Avenue >> Argonne, IL 60439 >> (630) 252-3190 (phone) >> (630) 252-5986.(fax) >> >> >

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problem with processing/uploading
by Tanya Yatsunenko 02 Apr '11

02 Apr '11

Hello again Thanks for fixing the previous issue. I have another one now: when I uploaded 2 metagenomes, on the 'browse metagenomes' page, 1 of them showed up as 3 jobs. I'm not sure if it's just an error on the webpage, or it was uploaded 2 or 3 times (although i pressed 'upload' only once). And there's no option to cancel the jobs. Interestingly, 1 of the duplicates shows an error (Finalizing data: error), but I couldn't find where can I see an error and how to fix it. Thanks very much for your help. Tanya. On Wed, Mar 30, 2011 at 1:41 PM, Andreas Wilke <wilke(a)mcs.anl.gov> wrote: > Hi Tanya , > > unfortunately we had to change the location of a logfile for our database. > This required a restart of the database. This does not require a > re-annotation of your metagenomes. > > Please let us know if you have still problems to access your metagenomes. > > Regards, > > Andreas Wilke > > > > On Mar 30, 2011, at 11:42 AM, Tanya Yatsunenko wrote: > > Hi > > I've used MG RAST long time ago, and still have several metagenomes > uploaded. However, when I tried to open "DAta Analysis" tab, I got this > message:Can't locate auto/DBI/error.al in @INC (@INC contains: > /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib > /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/FigKernelPackages > /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/WebApplication > /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/FortyEight > /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/PPO > /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/RAST > /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/MGRAST > /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/SeedViewer > /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/ModelSEED > /mcs/bio/mg-rast/prod/FIGDisk/dist/dev/common/lib > /mcs/bio/mg-rast/prod/FIGDisk/dist/dev/common/lib/FigKernelPackages > /mcs/bio/mg-rast/prod/FIGDisk/config > /mcs/bio/mg-rast/test/FIGDisk/dist/releases/current/common/lib > /mcs/bio/mg-rast/test/FIGDisk/dist/releases/current/common/lib/FigKernelPackages > /mcs/bio/mg-rast/test/FIGDisk/dist/releases/current/common/lib/WebApplication > /mcs/bio/mg-rast/test/FIGDisk/dist/releases/current/common/lib/FortyEight > /mcs/bio/mg-rast/test/FIGDisk/dist/releases/current/common/lib/PPO > /mcs/bio/mg-rast/test/FIGDisk/config > /soft/packages/perl/5.12.1/lib/site_perl/5.12.1/x86_64-linux-thread-multi > /soft/packages/perl/5.12.1/lib/site_perl/5.12.1 > /soft/packages/perl/5.12.1/lib/5.12.1/x86_64-linux-thread-multi > /soft/packages/perl/5.12.1/lib/5.12.1 .) at > /mcs/bio/mg-rast/prod/FIGDisk/dist/releases/mgrast_release_3_0_2/common/lib/Babel/lib/Babel.pm > line 29 > > Does that mean that I have to re-annotate all my metagenomes, i.e. submit > them as new jobs? > Thank you > > Tanya. > > > Andreas Wilke > Argonne National Laboratory > Mathematics and Computer Science Division > Bldg. 240 , 4F8 > 9700 South Cass Avenue > Argonne, IL 60439 > (630) 252-3190 (phone) > (630) 252-5986.(fax) > >

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Re: [mg-rast] Fwd: your data/metadata in mg-rast..
by Jack Gilbert 01 Apr '11

01 Apr '11

Ta Jack A Gilbert Argonne National Laboratory Building 202, Room B373 9700, South Cass Avenue Lemont, IL, 60439 Email: gilbertjack(a)ANL.gov Office: +1 630 252 7489 Cell: +1 630-915-2383 Sent from my iPhone On Apr 1, 2011, at 5:21 PM, Andreas Wilke <wilke(a)mcs.anl.gov> wrote: Fixed on production , the project is public and viewable. fix is in CVS and will roll out with next update. On Apr 1, 2011, at 1:49 PM, Folker Meyer wrote: There is a bug that Andi is foxing non Gsc format on robs side afaik -- Sent from mobile device On Apr 1, 2011, at 2:41 PM, Jack Gilbert <gilbertjack(a)gmail.com> wrote: Whats going on with the web site - please see email string below. Essentially Rob's group cannot access the data from this link....I can, bu they cannot. This is public right? <http://metagenomics.anl.gov/metagenomics.cgi?page=MetagenomeProject&project…> http://metagenomics.anl.gov/metagenomics.cgi?page=MetagenomeProject&project… Jack ---------- Forwarded message ---------- From: Jesse Stombaugh < <jistombaugh(a)gmail.com>jistombaugh(a)gmail.com> Date: Fri, Apr 1, 2011 at 1:14 PM Subject: Re: your data/metadata in mg-rast.. To: Jack Gilbert < <gilbertjack(a)gmail.com>gilbertjack(a)gmail.com> Cc: Rob Knight < <Rob.Knight(a)colorado.edu>Rob.Knight(a)colorado.edu> I guess I am not allowed to view public data then. I tried in both firefox and chrome, which results in the following view (attached png). -Jesse On Fri, Apr 1, 2011 at 12:11 PM, Jack Gilbert < <gilbertjack(a)gmail.com> gilbertjack(a)gmail.com> wrote: > Weird....I don't. > > From home or work. > > You must be logged in to view the page, but the data is public. > > J > > > > > On Fri, Apr 1, 2011 at 1:07 PM, Jesse Stombaugh < <jistombaugh(a)gmail.com> > jistombaugh(a)gmail.com> wrote: > >> When I click on the link I sent, I just see a blank page, therefore one >> cannot find information regarding your project. >> >> -Jesse >> >> >> >> >> On Fri, Apr 1, 2011 at 12:01 PM, Jack Gilbert < <gilbertjack(a)gmail.com> >> gilbertjack(a)gmail.com> wrote: >> >>> Do you mean that not all the metadata is recorded and it is seemingly all >>> in MIMARKS format with primers included not metagenomic or >>> metatranscriptomic methodologies? >>> >>> Just checking before I start ranting. >>> >>> J >>> >>> On Thu, Mar 31, 2011 at 3:07 PM, Jesse Stombaugh <<jistombaugh(a)gmail.com> >>> jistombaugh(a)gmail.com> wrote: >>> >>>> To discuss on 3:30 call: >>>> >>>> >>>> <http://metagenomics.anl.gov/metagenomics.cgi?page=MetagenomeProject&project…> >>>> http://metagenomics.anl.gov/metagenomics.cgi?page=MetagenomeProject&project… >>>> >>>> -- >>>> Jesse Stombaugh, Ph.D. >>>> Research Associate >>>> University of Colorado, Boulder >>>> >>> >>> >>> >>> -- >>> Dr. Jack A. Gilbert B.Sc. Ph.D. >>> Argonne National Laboratory >>> Bldg. 202, Biosciences >>> Room B373 >>> 9700 South Cass Avenue >>> Argonne, IL, 60430 >>> Tel: +1 630 252-7489 >>> Cell: +1 630 915 2383 >>> Email: <gilbertjack(a)gmail.com>gilbertjack(a)gmail.com >>> Twitter: @gilbertjacka >>> >>> >> >> >> -- >> Jesse Stombaugh, Ph.D. >> Research Associate >> University of Colorado, Boulder >> > > > > -- > Dr. Jack A. Gilbert B.Sc. Ph.D. > Argonne National Laboratory > Bldg. 202, Biosciences > Room B373 > 9700 South Cass Avenue > Argonne, IL, 60430 > Tel: +1 630 252-7489 > Cell: +1 630 915 2383 > Email: <gilbertjack(a)gmail.com>gilbertjack(a)gmail.com > Twitter: @gilbertjacka > > -- Jesse Stombaugh, Ph.D. Research Associate University of Colorado, Boulder -- Dr. Jack A. Gilbert B.Sc. Ph.D. Argonne National Laboratory Bldg. 202, Biosciences Room B373 9700 South Cass Avenue Argonne, IL, 60430 Tel: +1 630 252-7489 Cell: +1 630 915 2383 Email: <gilbertjack(a)gmail.com>gilbertjack(a)gmail.com Twitter: @gilbertjacka <Screen shot 2011-04-01 at 12.13.50 PM.png> Andreas Wilke Argonne National Laboratory Mathematics and Computer Science Division Bldg. 240 , 4F8 9700 South Cass Avenue Argonne, IL 60439 (630) 252-3190 (phone) (630) 252-5986.(fax)

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Re: [mg-rast] Fwd: your data/metadata in mg-rast..
by Andreas Wilke 01 Apr '11

01 Apr '11

Fixed on production , the project is public and viewable. fix is in CVS and will roll out with next update. On Apr 1, 2011, at 1:49 PM, Folker Meyer wrote: > There is a bug that Andi is foxing non Gsc format on robs side afaik > > -- > Sent from mobile device > > On Apr 1, 2011, at 2:41 PM, Jack Gilbert <gilbertjack(a)gmail.com> wrote: > >> Whats going on with the web site - please see email string below. >> >> Essentially Rob's group cannot access the data from this link....I can, bu they cannot. This is public right? >> http://metagenomics.anl.gov/metagenomics.cgi?page=MetagenomeProject&project… >> >> Jack >> ---------- Forwarded message ---------- >> From: Jesse Stombaugh <jistombaugh(a)gmail.com> >> Date: Fri, Apr 1, 2011 at 1:14 PM >> Subject: Re: your data/metadata in mg-rast.. >> To: Jack Gilbert <gilbertjack(a)gmail.com> >> Cc: Rob Knight <Rob.Knight(a)colorado.edu> >> >> >> I guess I am not allowed to view public data then. I tried in both firefox and chrome, which results in the following view (attached png). >> >> -Jesse >> >> >> On Fri, Apr 1, 2011 at 12:11 PM, Jack Gilbert <gilbertjack(a)gmail.com> wrote: >> Weird....I don't. >> >> From home or work. >> >> You must be logged in to view the page, but the data is public. >> >> J >> >> >> >> >> On Fri, Apr 1, 2011 at 1:07 PM, Jesse Stombaugh <jistombaugh(a)gmail.com> wrote: >> When I click on the link I sent, I just see a blank page, therefore one cannot find information regarding your project. >> >> -Jesse >> >> >> >> >> On Fri, Apr 1, 2011 at 12:01 PM, Jack Gilbert <gilbertjack(a)gmail.com> wrote: >> Do you mean that not all the metadata is recorded and it is seemingly all in MIMARKS format with primers included not metagenomic or metatranscriptomic methodologies? >> >> Just checking before I start ranting. >> >> J >> >> On Thu, Mar 31, 2011 at 3:07 PM, Jesse Stombaugh <jistombaugh(a)gmail.com> wrote: >> To discuss on 3:30 call: >> >> http://metagenomics.anl.gov/metagenomics.cgi?page=MetagenomeProject&project… >> >> -- >> Jesse Stombaugh, Ph.D. >> Research Associate >> University of Colorado, Boulder >> >> >> >> -- >> Dr. Jack A. Gilbert B.Sc. Ph.D. >> Argonne National Laboratory >> Bldg. 202, Biosciences >> Room B373 >> 9700 South Cass Avenue >> Argonne, IL, 60430 >> Tel: +1 630 252-7489 >> Cell: +1 630 915 2383 >> Email: gilbertjack(a)gmail.com >> Twitter: @gilbertjacka >> >> >> >> >> -- >> Jesse Stombaugh, Ph.D. >> Research Associate >> University of Colorado, Boulder >> >> >> >> -- >> Dr. Jack A. Gilbert B.Sc. Ph.D. >> Argonne National Laboratory >> Bldg. 202, Biosciences >> Room B373 >> 9700 South Cass Avenue >> Argonne, IL, 60430 >> Tel: +1 630 252-7489 >> Cell: +1 630 915 2383 >> Email: gilbertjack(a)gmail.com >> Twitter: @gilbertjacka >> >> >> >> >> -- >> Jesse Stombaugh, Ph.D. >> Research Associate >> University of Colorado, Boulder >> >> >> >> -- >> Dr. Jack A. Gilbert B.Sc. Ph.D. >> Argonne National Laboratory >> Bldg. 202, Biosciences >> Room B373 >> 9700 South Cass Avenue >> Argonne, IL, 60430 >> Tel: +1 630 252-7489 >> Cell: +1 630 915 2383 >> Email: gilbertjack(a)gmail.com >> Twitter: @gilbertjacka >> >> <Screen shot 2011-04-01 at 12.13.50 PM.png> Andreas Wilke Argonne National Laboratory Mathematics and Computer Science Division Bldg. 240 , 4F8 9700 South Cass Avenue Argonne, IL 60439 (630) 252-3190 (phone) (630) 252-5986.(fax)

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Question about barchart and abundances
by Nag, Ambarish 01 Apr '11

01 Apr '11

Hi, I am trying to obtain a level 1 distribution bar chart using the raw data for the functional classification of a metegenome using subsystems. When I look at the abundances in the data table (grouped by clear grouping) for the same metagenome and data selection parameters, I find that the sum of the abundances in the table differs from the sum of the number of counts in the data for the raw data bar chart. This results from the fact that the number of counts for some level 1 descriptors in the data file for the bar chart is different from the number of times the level 1 descriptor appears in the corresponding table. What is the reason behind this disparity? Thanks Ambarish

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Re: [mg-rast] Fwd: your data/metadata in mg-rast..
by William Trimble 01 Apr '11

01 Apr '11

It's not supposed to do that. For diagnosing: I can't see the linked page; I either get "You must be logged in to view this page." error (if not logged in) or a blank, empty white frame if I am logged in. I can see the linked content on the test site. w On Fri, Apr 1, 2011 at 1:41 PM, Jack Gilbert <gilbertjack(a)gmail.com> wrote: > Whats going on with the web site - please see email string below. > > Essentially Rob's group cannot access the data from this link....I can, bu > they cannot. This is public right? > http://metagenomics.anl.gov/metagenomics.cgi?page=MetagenomeProject&project… > > Jack > ---------- Forwarded message ---------- > From: Jesse Stombaugh <jistombaugh(a)gmail.com> > Date: Fri, Apr 1, 2011 at 1:14 PM > Subject: Re: your data/metadata in mg-rast.. > To: Jack Gilbert <gilbertjack(a)gmail.com> > Cc: Rob Knight <Rob.Knight(a)colorado.edu> > > > I guess I am not allowed to view public data then. I tried in both firefox > and chrome, which results in the following view (attached png). > -Jesse > > On Fri, Apr 1, 2011 at 12:11 PM, Jack Gilbert <gilbertjack(a)gmail.com> wrote: >> >> Weird....I don't. >> >> From home or work. >> >> You must be logged in to view the page, but the data is public. >> >> J >> >> >> >> On Fri, Apr 1, 2011 at 1:07 PM, Jesse Stombaugh <jistombaugh(a)gmail.com> >> wrote: >>> >>> When I click on the link I sent, I just see a blank page, therefore one >>> cannot find information regarding your project. >>> -Jesse >>> >>> >>> >>> On Fri, Apr 1, 2011 at 12:01 PM, Jack Gilbert <gilbertjack(a)gmail.com> >>> wrote: >>>> >>>> Do you mean that not all the metadata is recorded and it is seemingly >>>> all in MIMARKS format with primers included not metagenomic or >>>> metatranscriptomic methodologies? >>>> >>>> Just checking before I start ranting. >>>> >>>> J >>>> >>>> On Thu, Mar 31, 2011 at 3:07 PM, Jesse Stombaugh <jistombaugh(a)gmail.com> >>>> wrote: >>>>> >>>>> To discuss on 3:30 call: >>>>> >>>>> http://metagenomics.anl.gov/metagenomics.cgi?page=MetagenomeProject&project… >>>>> >>>>> -- >>>>> Jesse Stombaugh, Ph.D. >>>>> Research Associate >>>>> University of Colorado, Boulder >>>> >>>> >>>> >>>> -- >>>> Dr. Jack A. Gilbert B.Sc. Ph.D. >>>> Argonne National Laboratory >>>> Bldg. 202, Biosciences >>>> Room B373 >>>> 9700 South Cass Avenue >>>> Argonne, IL, 60430 >>>> Tel: +1 630 252-7489 >>>> Cell: +1 630 915 2383 >>>> Email: gilbertjack(a)gmail.com >>>> Twitter: @gilbertjacka >>>> >>> >>> >>> >>> -- >>> Jesse Stombaugh, Ph.D. >>> Research Associate >>> University of Colorado, Boulder >> >> >> >> -- >> Dr. Jack A. Gilbert B.Sc. Ph.D. >> Argonne National Laboratory >> Bldg. 202, Biosciences >> Room B373 >> 9700 South Cass Avenue >> Argonne, IL, 60430 >> Tel: +1 630 252-7489 >> Cell: +1 630 915 2383 >> Email: gilbertjack(a)gmail.com >> Twitter: @gilbertjacka >> > > > > -- > Jesse Stombaugh, Ph.D. > Research Associate > University of Colorado, Boulder > > > > -- > Dr. Jack A. Gilbert B.Sc. Ph.D. > Argonne National Laboratory > Bldg. 202, Biosciences > Room B373 > 9700 South Cass Avenue > Argonne, IL, 60430 > Tel: +1 630 252-7489 > Cell: +1 630 915 2383 > Email: gilbertjack(a)gmail.com > Twitter: @gilbertjacka > >

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The bug at KEGG map on MG-RAST
by Chih-Ying Lay 01 Apr '11

01 Apr '11

Dear Sir/Madame: How are you? Thank you for providing the new version of MG-RAST, which is really beautiful. However, there is probably a bug on the function of KEGG map. When I use the KEGG map to show which enzymes I have from my metagenome in the map, the highlightened boxes just show how many hits in my data, but don't show what are them. I assume if I click on the box, a window containing all the hits would jump out, but the window jumping out is just the reference of that enzyme. Could you take a look of this function? It will be very helpful for the research! Thank you very much! Have a nice weekend. Chih-Ying Lay

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Re: [mg-rast] Fwd: your data/metadata in mg-rast..
by Folker Meyer 01 Apr '11

01 Apr '11

There is a bug that Andi is foxing non Gsc format on robs side afaik -- Sent from mobile device On Apr 1, 2011, at 2:41 PM, Jack Gilbert <gilbertjack(a)gmail.com> wrote: > Whats going on with the web site - please see email string below. > > Essentially Rob's group cannot access the data from this link....I can, bu they cannot. This is public right? > http://metagenomics.anl.gov/metagenomics.cgi?page=MetagenomeProject&project… > > Jack > ---------- Forwarded message ---------- > From: Jesse Stombaugh <jistombaugh(a)gmail.com> > Date: Fri, Apr 1, 2011 at 1:14 PM > Subject: Re: your data/metadata in mg-rast.. > To: Jack Gilbert <gilbertjack(a)gmail.com> > Cc: Rob Knight <Rob.Knight(a)colorado.edu> > > > I guess I am not allowed to view public data then. I tried in both firefox and chrome, which results in the following view (attached png). > > -Jesse > > > On Fri, Apr 1, 2011 at 12:11 PM, Jack Gilbert <gilbertjack(a)gmail.com> wrote: > Weird....I don't. > > From home or work. > > You must be logged in to view the page, but the data is public. > > J > > > > > On Fri, Apr 1, 2011 at 1:07 PM, Jesse Stombaugh <jistombaugh(a)gmail.com> wrote: > When I click on the link I sent, I just see a blank page, therefore one cannot find information regarding your project. > > -Jesse > > > > > On Fri, Apr 1, 2011 at 12:01 PM, Jack Gilbert <gilbertjack(a)gmail.com> wrote: > Do you mean that not all the metadata is recorded and it is seemingly all in MIMARKS format with primers included not metagenomic or metatranscriptomic methodologies? > > Just checking before I start ranting. > > J > > On Thu, Mar 31, 2011 at 3:07 PM, Jesse Stombaugh <jistombaugh(a)gmail.com> wrote: > To discuss on 3:30 call: > > http://metagenomics.anl.gov/metagenomics.cgi?page=MetagenomeProject&project… > > -- > Jesse Stombaugh, Ph.D. > Research Associate > University of Colorado, Boulder > > > > -- > Dr. Jack A. Gilbert B.Sc. Ph.D. > Argonne National Laboratory > Bldg. 202, Biosciences > Room B373 > 9700 South Cass Avenue > Argonne, IL, 60430 > Tel: +1 630 252-7489 > Cell: +1 630 915 2383 > Email: gilbertjack(a)gmail.com > Twitter: @gilbertjacka > > > > > -- > Jesse Stombaugh, Ph.D. > Research Associate > University of Colorado, Boulder > > > > -- > Dr. Jack A. Gilbert B.Sc. Ph.D. > Argonne National Laboratory > Bldg. 202, Biosciences > Room B373 > 9700 South Cass Avenue > Argonne, IL, 60430 > Tel: +1 630 252-7489 > Cell: +1 630 915 2383 > Email: gilbertjack(a)gmail.com > Twitter: @gilbertjacka > > > > > -- > Jesse Stombaugh, Ph.D. > Research Associate > University of Colorado, Boulder > > > > -- > Dr. Jack A. Gilbert B.Sc. Ph.D. > Argonne National Laboratory > Bldg. 202, Biosciences > Room B373 > 9700 South Cass Avenue > Argonne, IL, 60430 > Tel: +1 630 252-7489 > Cell: +1 630 915 2383 > Email: gilbertjack(a)gmail.com > Twitter: @gilbertjacka > > <Screen shot 2011-04-01 at 12.13.50 PM.png>

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Fwd: your data/metadata in mg-rast..
by Jack Gilbert 01 Apr '11

01 Apr '11

Whats going on with the web site - please see email string below. Essentially Rob's group cannot access the data from this link....I can, bu they cannot. This is public right? http://metagenomics.anl.gov/metagenomics.cgi?page=MetagenomeProject&project… Jack ---------- Forwarded message ---------- From: Jesse Stombaugh <jistombaugh(a)gmail.com> Date: Fri, Apr 1, 2011 at 1:14 PM Subject: Re: your data/metadata in mg-rast.. To: Jack Gilbert <gilbertjack(a)gmail.com> Cc: Rob Knight <Rob.Knight(a)colorado.edu> I guess I am not allowed to view public data then. I tried in both firefox and chrome, which results in the following view (attached png). -Jesse On Fri, Apr 1, 2011 at 12:11 PM, Jack Gilbert <gilbertjack(a)gmail.com> wrote: > Weird....I don't. > > From home or work. > > You must be logged in to view the page, but the data is public. > > J > > > > > On Fri, Apr 1, 2011 at 1:07 PM, Jesse Stombaugh <jistombaugh(a)gmail.com>wrote: > >> When I click on the link I sent, I just see a blank page, therefore one >> cannot find information regarding your project. >> >> -Jesse >> >> >> >> >> On Fri, Apr 1, 2011 at 12:01 PM, Jack Gilbert <gilbertjack(a)gmail.com>wrote: >> >>> Do you mean that not all the metadata is recorded and it is seemingly all >>> in MIMARKS format with primers included not metagenomic or >>> metatranscriptomic methodologies? >>> >>> Just checking before I start ranting. >>> >>> J >>> >>> On Thu, Mar 31, 2011 at 3:07 PM, Jesse Stombaugh <jistombaugh(a)gmail.com>wrote: >>> >>>> To discuss on 3:30 call: >>>> >>>> >>>> http://metagenomics.anl.gov/metagenomics.cgi?page=MetagenomeProject&project… >>>> >>>> -- >>>> Jesse Stombaugh, Ph.D. >>>> Research Associate >>>> University of Colorado, Boulder >>>> >>> >>> >>> >>> -- >>> Dr. Jack A. Gilbert B.Sc. Ph.D. >>> Argonne National Laboratory >>> Bldg. 202, Biosciences >>> Room B373 >>> 9700 South Cass Avenue >>> Argonne, IL, 60430 >>> Tel: +1 630 252-7489 >>> Cell: +1 630 915 2383 >>> Email: gilbertjack(a)gmail.com >>> Twitter: @gilbertjacka >>> >>> >> >> >> -- >> Jesse Stombaugh, Ph.D. >> Research Associate >> University of Colorado, Boulder >> > > > > -- > Dr. Jack A. Gilbert B.Sc. Ph.D. > Argonne National Laboratory > Bldg. 202, Biosciences > Room B373 > 9700 South Cass Avenue > Argonne, IL, 60430 > Tel: +1 630 252-7489 > Cell: +1 630 915 2383 > Email: gilbertjack(a)gmail.com > Twitter: @gilbertjacka > > -- Jesse Stombaugh, Ph.D. Research Associate University of Colorado, Boulder -- Dr. Jack A. Gilbert B.Sc. Ph.D. Argonne National Laboratory Bldg. 202, Biosciences Room B373 9700 South Cass Avenue Argonne, IL, 60430 Tel: +1 630 252-7489 Cell: +1 630 915 2383 Email: gilbertjack(a)gmail.com Twitter: @gilbertjacka

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