[galaxy-user] unable to find the file

Respected Sir / Ma'am, 'x' tool having 3 commands, 1) command takes files from path. ex perl x.pl --mode 1 file1.bam file2.bam file3.fasta --output result1.txt 2) file4 must have name of result1.txt, file1.bam, file2.bam perl x.pl --mode 2 file4.txt --output-directory ~/result2/ for this

[galaxy-user] Error message

Hello! I use Galaxy to convert unaligned .bam files (RNA-seq) to fastq files. That works! Then i want to align the fastq files using TopHat2 or Tophat, but the analysis does not start since yesterday. However, I received the following error message several times since yesterday: Details

Re: [galaxy-user] Adding custom genome builds to a galaxy instance

Hi David, I think that you are asking about the locally cached reference genome builds - also sometimes called 'built-in'? If so, these wikis have instructions to help you create, organize, and obtain these data (if you want copies of what we host on Main). Reference genome builds can seem

Re: [galaxy-user] unable to find the file

Hi Chetan, try to use the configfile feature to create file4.txt ... https://wiki.galaxyproject.org/Admin/Tools/ToolConfigSyntax#A.3Cconfigfiles.3E_tag_set Cheers, Bjoern Am 04.03.2014 15:04, schrieb do kadya: Respected Sir / Ma'am, 'x' tool having 3 commands, 1) command takes files from