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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 ${i%.1*})/contigs.fasta \
2024-06-21 14:05:22
WARNING: GeneMark tool can't be started because of license limitations!
NOTICE: Genes are not predicted by default. Use --gene-finding or --glimmer option to enable it.
The rest of the command works as expected with the exception of Drawing interactive Krona plots which I know is a known bug. Unfortunately the --no-krona option isn't supported on my system but that is a separate problem. My HPC is again hosted by an American university and thus shouldn't have this license restriction. Please let me know what solutions or work arounds are available.
The text was updated successfully, but these errors were encountered:
Hello, I am trying to run metaquast through my university's HPC system. The system has both quast v 5.2.0 and genemark_s v 2012.04 available. However, when running this command with both modules loaded I receive the following warning:$ANALYSIS_FOLDER/assembly/assembly_stats/$ (basename ${i%.1*})
$ANALYSIS_FOLDER/assembly/megahit/$ (basename ${i%.1*})/megahit_final.contigs.fa
$ANALYSIS_FOLDER/assembly/spades/$ (basename ${i%.1*})/contigs.fasta \
metaquast.py
--threads 14
--gene-finding
-o
-l megahit,SPAdes
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.
The text was updated successfully, but these errors were encountered: