Hi,

I am running tophat-fusion-post using this command line:

./tophat-fusion-post -p 8 --num-fusion-reads 1 --num-fusion-pairs 2 --num-fusion-both 5 <path_to_bowtie_index>/<prefix>

The tophat-fusion output folder is in the same directory where I am running the command line.

and I got below error messages:

Traceback (most recent call last):

File "./tophat-fusion-post", line 2647, in <module> sys.exit(main())

File "./tophat-fusion-post", line 2615, in main map_fusion_kmer(bwt_idx_prefix, params, sample_updated)

File "./tophat-fusion-post", line 325, in map_fusion_kmer subprocess.call(cmd, stdout=open(output_dir + 'fusion_seq.bwtout', 'w'), stderr=open('/dev/null', 'w'))

File "/usr/lib64/python2.6/subprocess.py", line 478, in call p = Popen(popenargs, *kwargs)

File "/usr/lib64/python2.6/subprocess.py", line 642, in __init__ errread, errwrite)

File "/usr/lib64/python2.6/subprocess.py", line 1238, in _execute_child raise child_exception

OSError: [Errno 2] No such file or directory

Can someone help debug this? Was anything missed here?

Thanks,