Admin: Jennifer Hillman Jackson

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Jennifer Hillman-Jackson

Galaxy Application Support
http://usegalaxy.org
http://galaxyproject.org
http://biostar.usegalaxy.org

Posts by Jennifer Hillman Jackson

<prev • 5,180 results • page 1 of 518 • next >
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Comment: C: My data (grooming & tophat2) processing is taking longer than ususal.
... Has your job run by now? If not, do you have other jobs running? If so, when those complete latter jobs will start up. There are no known cluster issues at this time, but I just started a test run and will watch it to see what happens. The server has been busy. ...
written 4 days ago by Jennifer Hillman Jackson22k
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Answer: A: How to fix the ERROR: ''[bam_sort_core] merging. Reasonable run but...
... Hello, This sounds a lot like recent errors at Galaxy Main (http://usegalaxy.org) a bit over a week ago. There were a few more sporadic errors of this type last week. In short, this usually means that the alignment failed at some point. The result may only contain the header and/or potential incom ...
written 4 days ago by Jennifer Hillman Jackson22k
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Answer: A: Motif discovery-Chip seq
... Hi, These are motifs, not genes. - Primary publication: http://www.nature.com/nprot/journal/v9/n6/full/nprot.2014.083.html - Website manual help: http://meme-suite.org/doc/examples/memechip_example_output_files/meme-chip.html?man_type=web - Click on the "?" for any column to get a content desc ...
written 6 days ago by Jennifer Hillman Jackson22k
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Comment: C: Admin panel does not show up on interface
... Sorry to hear that none of this worked. This was a brand new instance, correct? You could try starting over. Problems can come up when something unintentional is altered. Isolating that can often take much more time, and be more frustrating, then starting with a fresh checkout. Let us know if you tr ...
written 6 days ago by Jennifer Hillman Jackson22k
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Comment: C: Trinity unusual error
... This is the ticket to address the usage issue. It can be followed, comments can be added by anyone with a Github account, and thumbs-up votes show community interest. https://github.com/galaxyproject/galaxy/issues/4418 ...
written 6 days ago by Jennifer Hillman Jackson22k
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Comment: C: Trinity unusual error
... Use `fastq` input, not `fasta`. More above here: https://biostar.usegalaxy.org/p/22724/#24413 Also double check that the `fastq` datasets are not truncated (check the end of the uploaded datasets using the tool Text manipulation > Select last lines from a dataset (tail). 10 lines should be enoug ...
written 6 days ago by Jennifer Hillman Jackson22k
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Comment: C: Trinity unusual error
... The working solution is to use the original `fastq` datasets as input instead of the fasta converted input. After review and tests, I do not believe that the Trinity service set up at http://usegalaxy.org is able to handle fasta input. I'll be creating an enhancement ticket to address this once all ...
written 6 days ago by Jennifer Hillman Jackson22k
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Comment: C: Admin panel does not show up on interface
... Ok, good, I just wanted to double check. Try logging in now. The galaxy.ini content you shared is correct (or appears to be). That line should have no leading or trailing whitespace (spaces or tabs). Maybe double check that if there are still problems. ...
written 6 days ago by Jennifer Hillman Jackson22k
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Comment: C: Admin panel does not show up on interface
... If you log into it, are you now admin? ...
written 6 days ago by Jennifer Hillman Jackson22k
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Comment: C: problem with diamond
... Your reference genome has description content. Remove that with the tool **NormalizeFasta** wrapping the sequence to 80 bases and truncating the title line at the first whitespace. The job itself probably failed because the genome was not first added using a "fetch genome" DM. The format issue will ...
written 6 days ago by Jennifer Hillman Jackson22k

Latest awards to Jennifer Hillman Jackson

Scholar 23 days ago, created an answer that has been accepted. For A: Illumina DNA sequence upload problem
Popular Question 4 weeks ago, created a question with more than 1,000 views. For Welcome to Galaxy Biostar
Scholar 5 weeks ago, created an answer that has been accepted. For A: filter by fasta ids
Scholar 5 weeks ago, created an answer that has been accepted. For A: CuffDiff Replicates - which files do replicates 0, 1, 2 point to?
Scholar 5 weeks ago, created an answer that has been accepted. For A: Illumina DNA sequence upload problem
Popular Question 7 weeks ago, created a question with more than 1,000 views. For April 8, 2011 Galaxy Development News Brief
Popular Question 7 weeks ago, created a question with more than 1,000 views. For Text Editing
Scholar 8 weeks ago, created an answer that has been accepted. For A: How get Cancer WGS for analysis in Galaxy
Scholar 9 weeks ago, created an answer that has been accepted. For A: 'Sampling' Bam or BigWig files?
Scholar 10 weeks ago, created an answer that has been accepted. For A: Aligning more than 2 sequences
Scholar 10 weeks ago, created an answer that has been accepted. For A: Trinity- error setting metadata
Scholar 10 weeks ago, created an answer that has been accepted. For A: Help with intersect -BedTools, WindowBed
Scholar 12 weeks ago, created an answer that has been accepted. For A: Trinity unusual error
Scholar 3 months ago, created an answer that has been accepted. For A: filter by fasta ids
Scholar 3 months ago, created an answer that has been accepted. For A: Extract Genomic DNA error with custom genome
Popular Question 3 months ago, created a question with more than 1,000 views. For Get Galaxy! Your own Local Server
Popular Question 3 months ago, created a question with more than 1,000 views. For About Galaxy !
Scholar 3 months ago, created an answer that has been accepted. For A: bowtie2 out of memory
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: bowtie2 out of memory
Scholar 4 months ago, created an answer that has been accepted. For C: Error using DataManager to fetch a reference genome
Scholar 4 months ago, created an answer that has been accepted. For A: Each sample as a condition? - cuffdiff
Scholar 4 months ago, created an answer that has been accepted. For A: Can I get back "Operate on Genomic Interval" on local Galaxy instance?
Scholar 5 months ago, created an answer that has been accepted. For A: DEPRECATED tools in Galaxy
Scholar 5 months ago, created an answer that has been accepted. For C: AddOrReplaceReadGroups Fatal error
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: bowtie2 out of memory

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