Arguments in assemble_reads.py

[SergioB1983]

Hi,

I have problems running the script secapr assemble_reads. This is the error that the system shows me:

Processing sample P02_WB06 Traceback (most recent call last): File "/home/sergiod/miniconda2/envs/secapr_env/bin/secapr", line 11, in <module> sys.exit(main()) File "/home/sergiod/miniconda2/envs/secapr_env/lib/python2.7/site-packages/secapr/__main__.py", line 52, in main args.func(args) File "/home/sergiod/miniconda2/envs/secapr_env/lib/python2.7/site-packages/secapr/assemble_reads.py", line 134, in main assembly_trinity(forward,backward,sample_output_folder,sample_id,cores,min_length) TypeError: assembly_trinity() takes exactly 7 arguments (6 given) I install the repositories via conda, install the lastest version of script and tried with a recent version of Trinity (2.6), but the error persists. Also the input data was created using the secapr clean_reads script

It is a problem in my installation, or is a problem in the script?

Thanks in advance!

[tandermann]

Hey Sergio, Thanks for the helpful bugreport. It was indeed a problem in the script. I fixed the issue and submitted the new secapr version (1.1.11) to the conda server. Once the conda staff approved my changes the new version will be available through conda by typing conda update secapr Best, Tobi

[tandermann]

the update with bugfix is available now as version 1.1.12