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crimBubble / ECCsplorer

The ECCsplorer is a bioinformatics pipeline for the automated detection of extrachromosomal circular DNA (eccDNA) from paired-end read data of amplified circular DNA.
GNU General Public License v3.0
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Something bugs #4

Closed notchw closed 2 years ago

notchw commented 2 years ago

Hi author: I am running ECCsplorer (2021-07-07 21:43:51,718), but the execution stuck until now (2021-07-13 10:08) Stop at "Calculating mean coverage of CO_map-all.MAPPING (ProcessID 76592; MultiID 51)" S__24829954

There are something bugs after I checked the log. I sent the log.txt to steve@bioinf.uni-leipzig.de Can you help me to solve this problem?

crimBubble commented 2 years ago

Hi, please send the log to Ludwig.Mann@tu-dresden.de. The people from the Uni Leipzig developed the segemehl tool which is used here but they are not involved in the development ECCsplorer pipeline. Thank you.

crimBubble commented 2 years ago

Please navigate to the ECCsplorer's config.py in the lib folder and change in line 192 the input option "--unmatched" to "--nomatchfilename" or download the updated config.py from github and exchange with the existing file. This should solve your issue.