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ncbi / fcs

Foreign Contamination Screening caller scripts and documentation
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The result file is missing an important column #16

Closed abcyulongwang closed 1 year ago

abcyulongwang commented 1 year ago

Hi,Thank you very much for designing this software！

I encountered such an error when running the software.

image

But surprisingly, the result file still outputs the .prt.tmp file. But when I view the result file, I find that the result file lacks several key columns. such as "weight" "result" "div " "div_pct_cvg ". This makes it impossible for me to accurately determine the type of species to which the sequence belongs only through the information of "div-1", "div-2", "div-3" and "div-4"

image

At present, I have no good way to solve this problem, and I really hope to get your help!

Best yulong

pstrope commented 1 year ago

Hi Yulong,

Please try again with the most recent run script. curl -LO https://github.com/ncbi/fcs/raw/main/dist/run_fcsgx.py The latest docker image should be v0.2.3

If you still encounter an error, please paste a complete log.

The rpt.tmp file that you posted is a transient intermediate file and looks as expected but is different from the actual result output file.

Thank you for your feedback, and let us know how it goes.

Pooja

abcyulongwang commented 1 year ago

Thanks for your reply, I have successfully solved the problem.

Good luck！