Mercurial > repos > petr-novak > dante_ltr

comparison tests.sh @ 13:559940c04c44 draft

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"planemo upload commit 139c041f671459192beb10ae45a8b371367c23b6"
author petr-novak
date Thu, 11 Aug 2022 07:29:06 +0000
parents ff01d4263391
children
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12:ff01d4263391 13:559940c04c44
39 ./detect_putative_ltr_wrapper.py -s test_data/sample_genome.fasta \ 39 ./detect_putative_ltr_wrapper.py -s test_data/sample_genome.fasta \
40 -g test_data/sample_DANTE.gff3 -o tmp/test_output5 -c $NCPU_TO_USE \ 40 -g test_data/sample_DANTE.gff3 -o tmp/test_output5 -c $NCPU_TO_USE \
41 -S 10000000 41 -S 10000000
42 cat tmp/test_output5_statistics.csv 42 cat tmp/test_output5_statistics.csv
43 43
44 echo "Running tests 4, filtering gff" 44 echo "Running tests 6, filtering gff"
45 ./clean_ltr.R -g tmp/test_output5.gff3 -s test_data/sample_genome.fasta \ 45 ./clean_ltr.R -g tmp/test_output5.gff3 -s test_data/sample_genome.fasta \
46 -o tmp/test_output6 -c $NCPU_TO_USE 46 -o tmp/test_output6 -c $NCPU_TO_USE
47
48 /detect_putative_ltr_wrapper.py -s test_data/sample_genome_part.fasta \
49 -g test_data/sample_DANTE_part.gff3 -o tmp/test_output7 -c $NCPU_TO_USE \
50 -S 10000000 -M 2