YAML/OPM parsing failed

[map.2...@gmail.com]

Hello,

I have analyzed my data with the OPM package and fit some curves (via "do_aggr" therein).  I exported the fitted data via 

write( to_yaml(myData) , "agg.yml" )

as in the OPM tutorial/manual.

Now, when I try to import this into DuctApe via the line

dphenome  add-multi  agg.yml

the following error is thrown:

YAML/OPM parsing failed!
No biolog data was found!
No phenotypic data available!

Please note that, indeed, the orgID is located within the "Strain Name" field in the OPM metadata.

Thank you.

[Marco Galardini]

Hi,

thanks for your interest in DuctApe: I'm sorry to hear that you
encountered that problem.
If you wouldn't mind sending me the offending file I can try to
reproduce (and fix) the problem. I would of course keep the data
confidential.

Best,
Marco

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Marco Galardini
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Wellcome Genome Campus
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[K Kosnicki]

Hi Marco, 

Has this problem been resolved? This has happened to me as well. I'm wondering what may be wrong with my phenomic .csv file.

thanks,

Kassi

[Marco Galardini]

Hi Kassi,

unfortunately i couldn't look into the original bug report for lack of examples that would make the process fail; if you could (privately?) send me your problematic file I could have a quick look into it.

Thanks,

 Marco