Re: [galaxy-user] BAM files loading and mandatory grooming

2011/7/27 Louise-Amélie Schmitt louise-amelie.schm...@embl.de: Hello Jennifer, Aaaah so the grooming means creating the .bai file? Ok, I didn't know, thanks for the information. But that leaves me wondering why it is necessary to copy the data (unless the alignments are not sorted yet, which

Re: [galaxy-user] blastn Q.

Hi Todd, Are you using the blastn wrapper from the galaxy-central repository? Thanks, K On Tue, Jul 26, 2011 at 12:40 PM, Todd Yilk ty...@lanl.gov wrote: Hello all, I'm using the blastn tool and Galaxy is generating this command (pasting from the log file): command is: perl

[galaxy-user] symbolic link to bowtie

Hi, I am running Galaxy locally (Ubuntu 11.04) and I am getting this error message when I try to use mapping with bowtie: Error indexing reference sequence /bin/sh: bowtie-build: not found Then I downloaded bowtie and tried to create a symbolic link using at /bin: ln -s /home/koala2/bowtie