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DMR Identification Tool
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Error when finding DMR's with scaffolded genome #22

Closed williamtjordan closed 5 years ago

williamtjordan commented 5 years ago

Hello,

I am encountering the following error when attempting to find DMR's with a scaffolded genome:

File ".local/bin/HOME-pairwise", line 4, in import('pkg_resources').run_script('HOME==0.6', 'HOME-pairwise') File "build/bdist.linux-x86_64/egg/pkg_resources/init.py", line 748, in run_script File "build/bdist.linux-x86_64/egg/pkg_resources/init.py", line 1524, in run_script File "/.local/lib/python2.7/site-packages/HOME-0.6-py2.7.egg/EGG-INFO/scripts/HOME-pairwise", line 466, in

File "/usr/local/apps/eb/Python/2.7.14-foss-2016b/lib/python2.7/multiprocessing/pool.py", line 572, in get raise self._value Exception: cannot convert the series to <type 'int'>

Any help resolving the issue would be most appreciated!

Akanksha2511 commented 5 years ago

Hi,

Can you please share few lines of your input file and the run command.

Thanks, Akanksha

williamtjordan commented 5 years ago

1000011 496 - CG 1 2 1000011 533 - CG 2 2 1000091 180 + CG 0 7 1000091 181 - CG 0 23 1000091 353 + CG 1 11 1000091 354 - CG 1 23 1000091 531 + CG 0 7 1000091 532 - CG 0 8 1000091 544 + CG 0 6 1000091 545 - CG 0 7

Attached above is a sample of my tab-delimited input files, and the run command is as follows:

HOME-pairwise -t CG -i home_DMR/samples.tsv -o results/home_DMR -npp 8

Thanks for your help!

Akanksha2511 commented 5 years ago

Thanks, the file format and the run command looks ok. Can you please share the files with me. If the files are small pls share the entire file otherwise maybe just first 1000 lines from each file. My email Id is 21447915@student.uwa.edu.au

Akanksha2511 commented 5 years ago

Exception handling added in the new version