Repository revision
0:be7bba8229c6

Repository 'centrifuge'
hg clone https://toolshed.g2.bx.psu.edu/repos/jvolkening/centrifuge

Centrifuge tool metadata
Miscellaneous
Centrifuge
Read-based metagenome characterization
centrifuge
toolshed.g2.bx.psu.edu/repos/jvolkening/centrifuge/centrifuge/1.0.4_beta
1.0.4_beta
centrifuge --version | perl -wnE'print "$1\n" for /centrifuge\S+ version (\S+)/g'
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/jvolkening/centrifuge/centrifuge/1.0.4_beta (this tool)
centrifuge
Requirements (dependencies defined in the <requirements> tag set)
name version type
centrifuge 1.0.4_beta package
Functional tests
name inputs outputs required files
Test-1 inputs|unpaired_0|u_reads: input_u.fq
inputs|db: test_db
 attributes: name
attributes: name
 input_u.fq
name
Test-2 inputs|paired_0|p_reads: paired collection
inputs|db: test_db
 attributes: name
attributes: name
 input_f.fq
input_r.fq
name
Test-3 inputs|unpaired_0|u_reads: input_u.fq
inputs|paired_0|p_reads: paired collection
inputs|db: test_db
 attributes: name
attributes: name
 input_u.fq
input_f.fq
input_r.fq
name
Test-4 inputs|unpaired_0|u_reads: input_u.fq
inputs|db: test_db
classification|exclude_taxids: 9913
 attributes: name
attributes: name
 input_u.fq
name
Test-5 inputs|unpaired_0|u_reads: input_u.fq
classification|host_taxids: 9913
inputs|db: test_db
 attributes: name
attributes: name
 input_u.fq
name
Test-6 inputs|unpaired_0|u_reads: input_u.fq
classification|min_hitlen: 83
inputs|db: test_db
 attributes: name
attributes: name
 input_u.fq
name
Test-7 inputs|unpaired_0|u_reads: input_u.fq
general|norc: True
inputs|db: test_db
 attributes: name
attributes: name
 input_u.fq
name
Test-8 inputs|unpaired_0|u_reads: input_u.fq
general|nofw: True
inputs|db: test_db
 attributes: name
attributes: name
 input_u.fq
name
Test-9 inputs|unpaired_0|u_reads: input_u.fq
inputs|db: test_db
general|seed: 123
 attributes: name
attributes: name
 input_u.fq
name
Test-10 inputs|unpaired_0|u_reads: input_u.fq
general|trim5: 10
inputs|db: test_db
 attributes: name
attributes: name
 input_u.fq
name
Test-11 inputs|unpaired_0|u_reads: input_u.fq
inputs|db: test_db
general|trim3: 5
 attributes: name
attributes: name
 input_u.fq
name
Test-12 inputs|unpaired_0|u_reads: input_u.fq
general|skip: 3
inputs|db: test_db
 attributes: name
attributes: name
 input_u.fq
name
Test-13 inputs|unpaired_0|u_reads: input_u.fq
general|upto: 6
inputs|db: test_db
 attributes: name
attributes: name
 input_u.fq
name
Test-14 inputs|unpaired_0|u_reads: input_u.fq
outputs|tab_fmt_cols: FooBar
inputs|db: test_db
 input_u.fq