Forum: Bioinformatics
09-07-2011, 09:04 AM
|
Replies: 5
Views: 4,429
I somehow made it:
I made a bash script which...
I somehow made it:
I made a bash script which first export the PATH with directories to tophat,bowtie, and samtools; and then runs the tophat.
I am running this script from within qsub with...
|
Forum: Bioinformatics
09-07-2011, 06:12 AM
|
Replies: 5
Views: 4,429
Thanks but it does not unfortunately; I run
...
Thanks but it does not unfortunately; I run
qsub -b y -e /mnt/fastfs/KW_Temp/installs -o /mnt/fastfs/KW_Temp/installs/ "echo $PATH > bow"
I have put PATH to both .bashrc and .profile files but...
|
Forum: Bioinformatics
09-07-2011, 04:09 AM
|
Replies: 5
Views: 4,429
Tophat cannot evoke bowtie from under qsub
Hi
I come across a strange problem. I have all the latest tophat, bowtie, samtools installed locally. All the tree programs are also in my $PATH.
When I run tophat on the test sequences it does...
|
Forum: Bioinformatics
09-04-2011, 04:13 AM
|
Replies: 21
Views: 6,371
|
Forum: Bioinformatics
09-03-2011, 05:53 PM
|
Replies: 21
Views: 6,371
More details
Thank you.
I run the bfast match with -s 1 and -e 1 (the same is for -e 100) and the full error message is:
************************************************************
Checking input parameters...
|
Forum: Bioinformatics
09-03-2011, 04:41 PM
|
Replies: 21
Views: 6,371
Bfast memory corruption error on all 8 read files
Hello
I have 8 files with 50bp SE SOLiD reads. For each and single file I am getting the same error during match step:
*** glibc detected *** /mnt/fastfs/bin/bfast: malloc(): memory corruption:...
|
Forum: SOLiD
09-01-2011, 11:07 AM
|
Replies: 1
Views: 4,155
|