Question: Galaxy Tool Error Report From Johnwu@Ibms.Sinica.Edu.Tw
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7.5 years ago by
GALAXY TOOL ERROR REPORT This error report was sent from the Galaxy instance hosted on the server "" 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. The user '' 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 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/ --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).
rna-seq cufflinks • 1.2k views
ADD COMMENTlink written 7.5 years ago by "mailto:galaxy-user"@lists.bx.psu.edu10
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