Comments (3)
@ArnaudBelcour please add these two lines here
logger.error('Please remove these targets from the targets file and re-run m2m_analysis')
sys.exit(1)
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Add these lines at two places:
- just after enumeration to delete the output json files associated with unproducible targets and stop the process from going after. With this modification, it is possible to rerun
m2m_analysis
and the enumeration will be launched again on the modified target file. - during graph solution creation to avoid creating graph solution with unproducible targets.
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Fixed in #61.
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Related Issues (20)
- I have the following problems when running the t2d_m2m_target_producers.R file: HOT 8
- Multiple errors when running test data HOT 7
- A better focus on the host metabolism when a host is provided HOT 1
- Issue with pathway tools API limitation and PGDB entries verification HOT 4
- Compute deadend and orphan metabolites
- Non optimal powergraph visualisation HOT 2
- m2m_analysis powergraph not working as expected HOT 27
- m2m recon not working with gbff file inputs HOT 4
- Error with analysis graph when using taxon_id HOT 5
- CRITICAL:metage2metabo.m2m.reconstruction:Something went wrong running Pathway Tools. See the log file in /home/chencong/output3/pgdb_log/log_error.txt HOT 6
- No /home/chencong/.ncbirc file, please fix it before using the program HOT 5
- [Question] Where can I find seed files? HOT 4
- Install metage2metabo problem HOT 5
- How to prepare inputs for metage2metabo HOT 3
- mpwt could not find the version of Pathway Tools HOT 1
- Individual scopes include seeds even if non producible or absent from the GSMNs HOT 3
- Do not allow abbreviation in command arguments. HOT 1
- Sanitize use of tarfile extractall. HOT 1
- gff file format problem while running m2m recon HOT 1
- When using `--pwt-xml`, the xml files extracted from Pathway Tools can be incompatible with python-libsbml. HOT 1
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