trying to run cuffmerge in mac os. when i had 2 samples it worked. when i had 16 it doesnt. it comes up with this error :
Traceback (most recent call last): File "/usr/local/bin/cuffmerge", line 580, in <module> sys.exit(main()) File "/usr/local/bin/cuffmerge", line 538, in main gtf_input_files = test_input_files(transfrag_list_file) File "/usr/local/bin/cuffmerge", line 268, in test_input_files g = open(line,"r") IOError: [Errno 2] No such file or directory: 's1l1transcripts.gtf'
i ran this command : cuffmerge -o /Users/.../cuffmerge/results /Users/.../cuffmerge/merged.txt
i created a folder in which i had all transcripts xxx.gtf files . A .txt file with all names of the xxx.gtf files and a results folder for the cufferge option -o. what is wrong ?
Also tried this command:cuffmerge -o /Users/.../results -p 2 -g /Users/../genes.gtf /Users/../cuffmerge/merged.txt