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License issue #270

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timj6599 opened this issue Jun 21, 2024 · 0 comments
Open

License issue #270

timj6599 opened this issue Jun 21, 2024 · 0 comments

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@timj6599
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Hello, I am trying to run metaquast through my university's HPC system. The system has both quast v 5.2.0 and genemark_s v 2012.04 available. However, when running this command with both modules loaded I receive the following warning:
metaquast.py
--threads 14
--gene-finding
-o $ANALYSIS_FOLDER/assembly/assembly_stats/$(basename ${i%.1*})
-l megahit,SPAdes
$ANALYSIS_FOLDER/assembly/megahit/$(basename ${i%.1*})/megahit_final.contigs.fa
$ANALYSIS_FOLDER/assembly/spades/$(basename ${i%.1*})/contigs.fasta \

2024-06-21 14:05:22
WARNING: GeneMark tool can't be started because of license limitations!

NOTICE: Genes are not predicted by default. Use --gene-finding or --glimmer option to enable it.

The rest of the command works as expected with the exception of Drawing interactive Krona plots which I know is a known bug. Unfortunately the --no-krona option isn't supported on my system but that is a separate problem. My HPC is again hosted by an American university and thus shouldn't have this license restriction. Please let me know what solutions or work arounds are available.

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