Question: Galaxy Tool Error Report From Johnwu@Ibms.Sinica.Edu.Tw
7.5 years ago by
"mailto:galaxy-user"@lists.bx.psu.edu • 10 wrote:
GALAXY TOOL ERROR REPORT This error report was sent from the Galaxy instance hosted on the server "192.168.0.36:8080" This is in reference to dataset id 316 from history id 2 You should be able to view the history containing the related history item 121: Cufflinks on data 92: gene expression by logging in as a Galaxy admin user to the Galaxy instance referenced above and pointing your browser to the following link. 192.168.0.36:8080/history/view?id=f597429621d6eb2b The user 'firstname.lastname@example.org' provided the following information: Hi galaxy dev team: I just installed galaxy on my ubuntu box and tried to do RNA-seq analysis according to Jeremy's excellent tutorial http://main.g2.bx.psu.edu/u/jeremy/p/galaxy-rna-seq-analysis-exercise however, I encountered following error messages when I was trying to execute Cufflinks in galaxy.. job id: 106 tool id: cufflinks job command line: python /home/galaxy/software/galaxy_dist/tools/ngs_rna/cufflinks_wrapper.py --input=/home/galaxy/software/galaxy_dist/database/files/000/dataset_2 87.dat --assembled-isoforms-output=/home/galaxy/software/g alaxy_dist/database/files/000/dataset_318.dat --num- threads="4" -I 300000 -F 0.05 -j 0.05 -b --ref_file="None" --dbkey=hg19 --index_dir=/home/galaxy/software/galaxy_dist/tool-data job stderr: Error running cufflinks. [Errno 2] No such file or directory: 'transcripts.gtf' job stdout: cufflinks v1.0.3 cufflinks -q --no-update-check -I 300000 -F 0.050000 -j 0.050000 -p 4 -b job info: None job traceback: None (This is an automated message).
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