Hi everyone,
I'm running MapSplice 1.15.1 and get an error:
[Thu Sep 15 11:19:36 2011] Preparing output location /home/ipulyakhina/Programs/MapSplice_1.15.2/RESULTS//
[Thu Sep 15 11:19:36 2011] Beginning Mapsplice run (v1.15.2)
-----------------------------------------------
bin directory: [/home/ipulyakhina/Programs/MapSplice_1.15.2/bin/]
[Thu Sep 15 11:19:36 2011] Checking for chromosomes files or directory
[Thu Sep 15 11:19:36 2011] Checking for chromosomes files or directory passed
[Thu Sep 15 11:19:36 2011] Checking for Bowtie index files
[Thu Sep 15 11:19:36 2011] Indexing chromosome sequences
[Thu Sep 15 11:23:46 2011] check reads format
[Thu Sep 15 11:23:46 2011] merge paired end reads remove short
[Thu Sep 15 11:23:46 2011] Converting bowtie mapped to SAM format
[Thu Sep 15 11:23:46 2011] divide reads
[Thu Sep 15 11:23:46 2011] Mapping reads against with Bowtie
[FAILED]
Error: could not execute Bowtie
Of course I have the latest version of bowtie, I've written the path to bowtie in the .bashrc and I can execute it from the command line.
Does anyone know what is the problem?
Thanks in advance,
Irina
I'm running MapSplice 1.15.1 and get an error:
[Thu Sep 15 11:19:36 2011] Preparing output location /home/ipulyakhina/Programs/MapSplice_1.15.2/RESULTS//
[Thu Sep 15 11:19:36 2011] Beginning Mapsplice run (v1.15.2)
-----------------------------------------------
bin directory: [/home/ipulyakhina/Programs/MapSplice_1.15.2/bin/]
[Thu Sep 15 11:19:36 2011] Checking for chromosomes files or directory
[Thu Sep 15 11:19:36 2011] Checking for chromosomes files or directory passed
[Thu Sep 15 11:19:36 2011] Checking for Bowtie index files
[Thu Sep 15 11:19:36 2011] Indexing chromosome sequences
[Thu Sep 15 11:23:46 2011] check reads format
[Thu Sep 15 11:23:46 2011] merge paired end reads remove short
[Thu Sep 15 11:23:46 2011] Converting bowtie mapped to SAM format
[Thu Sep 15 11:23:46 2011] divide reads
[Thu Sep 15 11:23:46 2011] Mapping reads against with Bowtie
[FAILED]
Error: could not execute Bowtie
Of course I have the latest version of bowtie, I've written the path to bowtie in the .bashrc and I can execute it from the command line.
Does anyone know what is the problem?
Thanks in advance,
Irina
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