Mercurial > repos > jowong > khmer_load_into_counting
changeset 10:c746795cbad0 draft
planemo upload
| author | jowong |
|---|---|
| date | Mon, 26 Nov 2018 01:03:53 -0500 |
| parents | 1736e2f83001 |
| children | ea06ad2b93fa |
| files | khmer_load_into_counting.xml |
| diffstat | 1 files changed, 4 insertions(+), 4 deletions(-) [+] |
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--- a/khmer_load_into_counting.xml Mon Nov 26 00:59:16 2018 -0500 +++ b/khmer_load_into_counting.xml Mon Nov 26 01:03:53 2018 -0500 @@ -1,4 +1,4 @@ -<tool id="khmer_load_into_counting" name="Load Into Counting" version="1.0.1"> +<tool id="khmer_load_into_counting" name="Load Into Counting" version="1.0.3"> <description>Creates k-mer countgraph using reads</description> <requirements> <requirement type="package" version="2.1.2">khmer</requirement> @@ -7,7 +7,7 @@ load-into-counting.py $advanced.b $advanced.small - -k $kmer + -k $advanced.kmer -U $advanced.ukmer #if str( $advanced.max_mem ) != "0" -M $advanced.max_mem @@ -46,7 +46,7 @@ <param name="ukmer" type="integer" value="0" label="Unique K-mer" help="approximate number of unique kmers in the input set (default: 0)" /> <param name="num_table" type="integer" value="1" label="Number of tables" help="number of tables to use (default: False)" /> - <param name="table_size" type="integer" value="1e9" label="Maximum size of table" help="maximum size of tables to use (default: False)" /> + <param name="table_size" type="integer" value="1000000000" label="Maximum size of table" help="maximum size of tables to use (default: False)" /> <param name="max_mem" type="integer" value="0" label="Maximum Memory" help="number of tables to use (default: False)" /> <param name="fp_rate" type="integer" value="0" label="FP rate override" help="Override the automatic FP rate setting for the current script" /> </section> @@ -59,7 +59,7 @@ || You are running khmer version 2.1.2 || You are also using screed version 1.0 || -|| If you use this script in a publication, please cite EACH of the following:``````````````````````````````````````````````````````````````````````````` +|| If you use this script in a publication, please cite EACH of the following: || || * MR Crusoe et al., 2015. http://dx.doi.org/10.12688/f1000research.6924.1 || * Q Zhang et al., http://dx.doi.org/10.1371/journal.pone.0101271