Hello,
I am trying to run TopHat Fusion Post, and I am having this error:
Traceback (most recent call last):
File "/N/u/lab/tophat-2.0.8b.Linux_x86_64/tophat-fusion-post", line 2627, in ?
sys.exit(main())
File "/N/u/lab/tophat-2.0.8b.Linux_x86_64/tophat-fusion-post", line 2595, in main
map_fusion_kmer(bwt_idx_prefix, params, sample_updated)
File "/N/u/lab/tophat-2.0.8b.Linux_x86_64/tophat-fusion-post", line 317, in map_fusion_kmer
subprocess.call(cmd, stdout=open(output_dir + 'fusion_seq.bwtout', 'w'), stderr=open('/dev/null', 'w'))
File "/usr/lib64/python2.4/subprocess.py", line 419, in call
return Popen(*args, **kwargs).wait()
File "/usr/lib64/python2.4/subprocess.py", line 550, in __init__
errread, errwrite)
File "/usr/lib64/python2.4/subprocess.py", line 996, in _execute_child
raise child_exception
OSError: [Errno 2] No such file or directory
Itried with different solutions, such as using a new directory for Bowtie both 1 and 2. Make the directory similar to what it is suggested in thier website.
Can anyone please help me with suggestions.
Thank you,
Samar
I am trying to run TopHat Fusion Post, and I am having this error:
Traceback (most recent call last):
File "/N/u/lab/tophat-2.0.8b.Linux_x86_64/tophat-fusion-post", line 2627, in ?
sys.exit(main())
File "/N/u/lab/tophat-2.0.8b.Linux_x86_64/tophat-fusion-post", line 2595, in main
map_fusion_kmer(bwt_idx_prefix, params, sample_updated)
File "/N/u/lab/tophat-2.0.8b.Linux_x86_64/tophat-fusion-post", line 317, in map_fusion_kmer
subprocess.call(cmd, stdout=open(output_dir + 'fusion_seq.bwtout', 'w'), stderr=open('/dev/null', 'w'))
File "/usr/lib64/python2.4/subprocess.py", line 419, in call
return Popen(*args, **kwargs).wait()
File "/usr/lib64/python2.4/subprocess.py", line 550, in __init__
errread, errwrite)
File "/usr/lib64/python2.4/subprocess.py", line 996, in _execute_child
raise child_exception
OSError: [Errno 2] No such file or directory
Itried with different solutions, such as using a new directory for Bowtie both 1 and 2. Make the directory similar to what it is suggested in thier website.
Can anyone please help me with suggestions.
Thank you,
Samar
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