November 2019 - galaxy-dev - lists.galaxyproject.org

Errors running jobs in Galaxy 16.01 with slurm-drmaa 1.1.0
by Philip Blood 29 Jan '20

29 Jan '20

Hi Folks, I'm trying to get an old instance of Galaxy (16.01) working for a user who needs to use it this week for a class he is teaching (so upgrading Galaxy is not an option at the moment). Due to a recent slurm upgrade on our compute system to slurm 18.08.8, we had to replace the old slurm-drmaa 1.0.7 library <http://apps.man.poznan.pl/trac/slurm-drmaa>, which doesn't work with with 18.08.8, with Nate's forked slurm-drmaa library version 1.1.0 <https://github.com/natefoo/slurm-drmaa>. That built fine with slurm 18.08.8 and (I think) we updated all the relevant pointers in the galaxy config to point to the new slurm-drmaa 1.1.0 library. However, now when I try to run jobs on our system I get errors (it worked fine before with slurm-drmaa 1.0.7 and the older version of slurm). So, I wanted to get a quick sanity check on whether this might be an issue with trying to use the new slurm-drmaa with an old version of Galaxy, 16.01, or if anyone has any other quick thoughts on troubleshooting this. The errors I get are below. Best, Phil *Short version (just the errors):* 198.91.54.159 - - [31/Aug/2019:16:31:28 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" *galaxy.jobs.runners.drmaa WARNING 2019-08-31 16:31:30,366 (10) drmaa.Session.runJob() failed, will retry: code 1: slurm_submit_batch_job error (2): No such file or directory* 198.91.54.159 - - [31/Aug/2019:16:31:32 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" *galaxy.jobs.runners.drmaa WARNING 2019-08-31 16:31:35,372 (10) drmaa.Session.runJob() failed, will retry: code 1: slurm_submit_batch_job error (0): No error* 198.91.54.159 - - [31/Aug/2019:16:31:37 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" *galaxy.jobs.runners.drmaa WARNING 2019-08-31 16:31:40,377 (10) drmaa.Session.runJob() failed, will retry: code 1: slurm_submit_batch_job error (0): No error* 198.91.54.159 - - [31/Aug/2019:16:31:41 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:31:45 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" *galaxy.jobs.runners.drmaa WARNING 2019-08-31 16:31:45,383 (10) drmaa.Session.runJob() failed, will retry: code 1: slurm_submit_batch_job error (0): No error* 198.91.54.159 - - [31/Aug/2019:16:31:49 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" *galaxy.jobs.runners.drmaa WARNING 2019-08-31 16:31:50,388 (10) drmaa.Session.runJob() failed, will retry: code 1: slurm_submit_batch_job error (0): No error* 198.91.54.159 - - [31/Aug/2019:16:31:53 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" *galaxy.jobs.runners.drmaa ERROR 2019-08-31 16:31:55,393 (10) All attempts to submit job failed * *Full context:* 198.91.54.159 - - [31/Aug/2019:16:30:27 +0000] "GET /api/tools/squeue/build HTTP/1.1" 200 - "https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" galaxy.tools DEBUG 2019-08-31 16:30:30,142 Validated and populated state for tool request (4.081 ms) galaxy.tools.actions INFO 2019-08-31 16:30:30,285 Handled output (100.616 ms) galaxy.tools.actions INFO 2019-08-31 16:30:30,319 Verified access to datasets (0.005 ms) galaxy.tools.execute DEBUG 2019-08-31 16:30:30,368 Tool [squeue] created job [10] (206.086 ms) galaxy.tools.execute DEBUG 2019-08-31 16:30:30,376 Executed all jobs for tool request: (233.862 ms) 198.91.54.159 - - [31/Aug/2019:16:30:30 +0000] "POST /api/tools HTTP/1.1" 200 - "https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:30:30 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" galaxy.jobs DEBUG 2019-08-31 16:30:30,747 (10) Working directory for job is: /opt/packages/galaxy/galaxy01/database/job_working_directory/000/10 galaxy.jobs.handler DEBUG 2019-08-31 16:30:30,751 (10) Dispatching to slurm runner galaxy.jobs DEBUG 2019-08-31 16:30:30,774 (10) Persisting job destination (destination id: LM4) galaxy.jobs.runners DEBUG 2019-08-31 16:30:30,790 Job [10] queued (38.578 ms) galaxy.jobs.handler INFO 2019-08-31 16:30:30,818 (10) Job dispatched galaxy.tools.deps DEBUG 2019-08-31 16:30:31,012 Building dependency shell command for dependency 'slurm' galaxy.tools.deps DEBUG 2019-08-31 16:30:31,013 Find dependency slurm version None galaxy.tools.deps DEBUG 2019-08-31 16:30:31,013 Resolver tool_shed_packages returned <galaxy.tools.deps.resolvers.NullDependency object at 0x1b38390> (isnull? True) galaxy.tools.deps DEBUG 2019-08-31 16:30:31,014 Resolver galaxy_packages returned <galaxy.tools.deps.resolvers.galaxy_packages.GalaxyPackageDependency object at 0x7fc78c334750> (isnull? False) galaxy.jobs.command_factory INFO 2019-08-31 16:30:31,057 Built script [/opt/packages/galaxy/galaxy01/database/job_working_directory/000/10/tool_script.sh] for tool command[PACKAGE_BASE=/opt/packages/galaxy/galaxy01/tool_dependencies/slurm/18.08.8; export PACKAGE_BASE; . /opt/packages/galaxy/galaxy0 1/tool_dependencies/slurm/18.08.8/env.sh; echo "hostname:" > output; echo " " >> output; hostname >> output; echo " " >> output; env >> output; echo " " >> output; date >> output; echo " " >> output; echo "Uptime:" >> output; echo " " >> output; uptime >> output; echo " " >> output; echo "Module s:" >> output; echo " " >> output; module avail >> output 2>&1; echo " " >> output; echo "SLURM Queue Status" >> output; echo " " >> output; echo "If your job is running on the queues, it will be listed in the reports below:" >> output; echo " " >> output; echo " " >> output; echo "Normal Report: s queue" >> output; echo " " >> output; echo " " >> output; echo " " >> output; squeue >> output; date >> output; echo " " >> output; echo " " >> output; echo "*** Full Report: squeue -l ***" >> output; echo " " >> output; squeue -l >> output; echo " " >> output; echo " " >> output; date >> output; echo " " >> output; echo "Local: ${LOCAL}" >> output; echo "Ramdisk: ${RAMDISK}" >> output; workdir=`pwd`; echo "workdir is $workdir" >> output; cd $LOCAL; echo "i am in `pwd`" >> $workdir/output; cd $workdir; echo "i am in `pwd`" >> output; date >> output; echo " " >> output] galaxy.tools.deps DEBUG 2019-08-31 16:30:31,259 Building dependency shell command for dependency 'samtools' galaxy.tools.deps DEBUG 2019-08-31 16:30:31,259 Find dependency samtools version None galaxy.tools.deps DEBUG 2019-08-31 16:30:31,259 Resolver tool_shed_packages returned <galaxy.tools.deps.resolvers.NullDependency object at 0x1b38390> (isnull? True) galaxy.tools.deps DEBUG 2019-08-31 16:30:31,279 Resolver galaxy_packages returned <galaxy.tools.deps.resolvers.galaxy_packages.GalaxyPackageDependency object at 0x7fc7b01e01d0> (isnull? False) galaxy.jobs.runners DEBUG 2019-08-31 16:30:31,284 (10) command is: /opt/packages/galaxy/galaxy01/database/job_working_directory/000/10/tool_script.sh; return_code=$?; if [ -f /opt/packages/galaxy/galaxy01/database/job_working_directory/000/10/output ] ; then cp /opt/packages/galaxy/galaxy01/databas e/job_working_directory/000/10/output /opt/packages/galaxy/galaxy01/database/files/000/dataset_10.dat ; fi; PACKAGE_BASE=/opt/packages/galaxy/galaxy01/tool_dependencies/samtools/0.1.19; export PACKAGE_BASE; . /opt/packages/galaxy/galaxy01/tool_dependencies/samtools/0.1.19/env.sh; python "/opt/packa ges/galaxy/galaxy01/database/job_working_directory/000/10/set_metadata_jGYkkM.py" "/opt/packages/galaxy/galaxy01/tmp/tmpxmB5GA" "/opt/packages/galaxy/galaxy01/database/job_working_directory/000/10/galaxy.json" "/opt/packages/galaxy/galaxy01/database/job_working_directory/000/10/metadata_in_HistoryD atasetAssociation_10_u2k7qq,/opt/packages/galaxy/galaxy01/database/job_working_directory/000/10/metadata_kwds_HistoryDatasetAssociation_10_2ZmSXR,/opt/packages/galaxy/galaxy01/database/job_working_directory/000/10/metadata_out_HistoryDatasetAssociation_10_shC78c,/opt/packages/galaxy/galaxy01/databa se/job_working_directory/000/10/metadata_results_HistoryDatasetAssociation_10_57x96D,/opt/packages/galaxy/galaxy01/database/files/000/dataset_10.dat,/opt/packages/galaxy/galaxy01/database/job_working_directory/000/10/metadata_override_HistoryDatasetAssociation_10_AEeOfc" 5242880; sh -c "exit $retur n_code" galaxy.jobs.runners.drmaa DEBUG 2019-08-31 16:30:31,356 (10) submitting file /opt/packages/galaxy/galaxy01/database/job_working_directory/000/10/galaxy_10.sh galaxy.jobs.runners.drmaa DEBUG 2019-08-31 16:30:31,356 (10) native specification is: -p LM -C LM -N 1 -n 4 --ntasks-per-node=4 --mem=192500 -t 24:00:00 198.91.54.159 - - [31/Aug/2019:16:30:34 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:30:38 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:30:42 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:30:47 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:30:51 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:30:55 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:30:59 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:31:03 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:31:08 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:31:12 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:31:16 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:31:20 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:31:24 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:31:28 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" *galaxy.jobs.runners.drmaa WARNING 2019-08-31 16:31:30,366 (10) drmaa.Session.runJob() failed, will retry: code 1: slurm_submit_batch_job error (2): No such file or directory* 198.91.54.159 - - [31/Aug/2019:16:31:32 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" *galaxy.jobs.runners.drmaa WARNING 2019-08-31 16:31:35,372 (10) drmaa.Session.runJob() failed, will retry: code 1: slurm_submit_batch_job error (0): No error* 198.91.54.159 - - [31/Aug/2019:16:31:37 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" *galaxy.jobs.runners.drmaa WARNING 2019-08-31 16:31:40,377 (10) drmaa.Session.runJob() failed, will retry: code 1: slurm_submit_batch_job error (0): No error* 198.91.54.159 - - [31/Aug/2019:16:31:41 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" 198.91.54.159 - - [31/Aug/2019:16:31:45 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" *galaxy.jobs.runners.drmaa WARNING 2019-08-31 16:31:45,383 (10) drmaa.Session.runJob() failed, will retry: code 1: slurm_submit_batch_job error (0): No error* 198.91.54.159 - - [31/Aug/2019:16:31:49 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" *galaxy.jobs.runners.drmaa WARNING 2019-08-31 16:31:50,388 (10) drmaa.Session.runJob() failed, will retry: code 1: slurm_submit_batch_job error (0): No error* 198.91.54.159 - - [31/Aug/2019:16:31:53 +0000] "GET /api/histories/8237ee2988567c1c/contents HTTP/1.1" 200 - " https://galaxy.bridges.psc.edu/" "Mozilla/5.0 (Windows NT 10.0; Win64; x64; rv:68.0) Gecko/20100101 Firefox/68.0" *galaxy.jobs.runners.drmaa ERROR 2019-08-31 16:31:55,393 (10) All attempts to submit job failed *

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Problem with uploading data
by Rodrigo Machado 27 Nov '19

27 Nov '19

Hello and to whom it may concern. As I point out in the matter, I am having trouble uploading information, particularly a BIOPROJECT that has already uploaded. I am taking exactly the same steps that I previously used to load this database. I don't understand if Galaxy is not working properly today or what it can be. I am loading it from: Download from web or upload from disk / Upload data as: Collection (s) / Load tabular data from: (pasted table). Thank you in advance and sorry for the inconvenience Lic. Rodrigo Machado JTP Introducción a la Biología, TGG - UNER Becario Doctoral EEA INTA Concordia Estación Yuquerí - Ruta 22 y vías FFCC - CC 34 Concordia - Entre Ríos - Argentina Tel. +54-345-4290000 (int. 162)

2 2

Question on RNA STAR Revision: 13:850f3679b9b4
by Sarah Maman 26 Nov '19

26 Nov '19

?Hello, Please could you help me to run this wrapper : RNA STAR Gapped-read mapper for RNA-seq data (Galaxy Version 2.7.2b) without this error: terminate called after throwing an instance of 'std::out_of_range' what(): basic_string::at /galaxydata/galaxy-prod/my_job_working_directory/000/282/282124/tool_script.sh: line 9: 48744 Aborted (core dumped) STAR --runThreadN ${GALAXY_SLOTS:-4}... Even if I increase the number of genome bins for coordinate-sorting, output files are all empty and I read this stderr above. Thanks in advance, Sarah Maman INRA | SIGENAE | GenPhySE | INRA Occitanie-Toulouse Tél. : +33(0)5.61.28.57.08 Télétravail lundi / vendredi

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The issue of privilege splitting for multiple Galaxy administrators.
by lizhi.hust.16＠gmail.com 25 Nov '19

25 Nov '19

Our team has multiple administrators to maintain the Galaxy platform in our cluster. And each administrator has their own account. But we met a problem, terms of reference for each administrator is ambiguous. For example, if users report a bug in the platform, two or three administrators will handle it. But sometimes, these administrators can't discuss timely to determine who handles these problems (because they are in different time zones). So usually, they will try to fix the issue immediately when they get reports. But sometimes, their solution may conflict. We try to arrange each administrator to handle one kind of issue to eliminate the conflict. But the reports cover lots of ranges. Our splitting can't work well. So we want to know if the galaxy can help us split the privilege of each admin accounts? Just let each admin account is in charge of developing one component of the galaxy. Such as A is in charge of tools uploading, B is in charge of fixing tools bug... May I ask is the galaxy has the function to provide this kind of privilege splitting for their admin accounts? Thanks!

1 0

Release of Galaxy 19.09
by John Chilton 22 Nov '19

22 Nov '19

Dear Community, The Galaxy Committers team is pleased to announce the release of Galaxy 19.09. The release announcement for developers and admins can be found at https://docs.galaxyproject.org/en/master/releases/19.09_announce.html and user facing release notes are at https://docs.galaxyproject.org/en/master/releases/19.09_announce_user.html. A few release highlights are: Interactive Tools ---------------------- A new type of Galaxy tool has been implemented that allows interactive experiences like Galaxy Interactive Environments (via a proxy and Docker containers) but using plugins defined with Galaxy’s XML tool syntax. Workflow Invocation Reports --------------------------- Workflows may now define Markdown templates with Galaxy-specific embedded syntax extensions that can tie together workflow inputs, outputs, jobs, and metadata into rich reports. New Toolshed Client Interface ----------------------------- This project drove numerous enhancements to the Tool Shed API, including vastly improved search functionality. This interface has been completely re-imagined and feels much more interactive. Check out the release notes for a lot more details - there are many more enhancements such as new interface elements, visualizations, datatypes, and more. There are also important notes for Galaxy deployers - such as information about configuration changes in this release and the formal deprecation of Python 2.7 support (this will be the last release with formal support of Python 2). Thanks for using Galaxy!

1 0

fuel delivery companies near me
by powerbaba48＠gmail.com 21 Nov '19

21 Nov '19

diesel home delivery bangalore: Get Diesel fuel to your generators and machines with no restrictions on minimum order and save money by avoiding fuel theft. Home delivery of fuel in Bangalore is simple, call 8884144444 or place order online. https://powerbaba.com

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wedding makeup
by Glossandglassblr＠Gmail.Com 21 Nov '19

21 Nov '19

The GlossnGlass are the best bridal makeup artist in bangalore go beyond just creating immaculate makeup looks. We also train and produce the finest makeup artists through our professional makeup artist courses.With a team of expert trainers from the makeup industry, our makeup academy offers various intensive professional and personal grooming courses. https://www.glossnglass.com/

1 0

top 10 law colleges in bangalore
by abbslaw123＠gmail.com 20 Nov '19

20 Nov '19

ABBS School of Law is one of the top law colleges in bangalore ,Affiliated to Karnataka State Law University and Approved by Bar Council of India, New Delhi https://abbslaw.edu.in/

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GMOD codefest registration now open
by Scott Cain 18 Nov '19

18 Nov '19

Hello, As announced last month, there will be a GMOD codefest held before the Plant and Animal Genome meeting in San Diego, January 9-10, 2020. The meeting will be held at the Handlery hotel (down the street from the Town and Country Hotel). Logistical and other information can be found at the GMOD wiki as the details become more solid: http://gmod.org/wiki/Codefest_2020 Several potential projects are described in this document: https://docs.google.com/document/d/1_CnUW_W4tNyl7lSlihCwZDKT45VQQxcI3I-Vgjn… We know for sure that there will be developers from the Tripal, Apollo, JBrowse, and Chado projects. Of course, other projects like Galaxy, InterMine, and MAKER are welcome too! See you in San Diego! Scott -- ------------------------------------------------------------------------ Scott Cain, Ph. D. scott at scottcain dot net GMOD Coordinator (http://gmod.org/) 216-392-3087 Ontario Institute for Cancer Research

1 0

Deleted Galaxy Account
by Horstmann, Cullen M 14 Nov '19

14 Nov '19

Good evening, Upon trying to log onto my galaxy profile I received this message: "This account has been marked deleted, contact your local Galaxy administrator to restore the account." I was hoping I could re-gain access to this account because I have a lot of differential gene expression data on my account. Please let me know what I need to do to re-gain access at your earliest convenience. Kind Regards, Cullen Horstmann Missouri State University Master's in Biology Graduate Researcher | Kim Lab Teaching Assistant | Biology Department

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