comparison data_manager/data_manager_snpEff_databases.xml @ 5:8952990fcab9

Update to snpEff version 3.4 and add data managers to download snpEff genome reference databases

4:47ddc9f4d0b6

<tool id="data_manager_snpeff_databases" name="SnpEff Databases" version="3.3" tool_type="manage_data">
	<description>Read the list of available snpEff databases</description>
	<requirements>
		<requirement type="package" version="3.3">snpEff</requirement>
	</requirements>
	<command interpreter="python">
        data_manager_snpEff_databases.py --jar_path \$SNPEFF_JAR_PATH/snpEff.jar "$out_file"
        </command>
	<inputs>

It should only need to be run once for a snpEff version, 
since it populates the SnpEff Download data manager from the snpEff config file.

For information about snpEff:    http://snpEff.sourceforge.net

	</help>
</tool>

5:8952990fcab9

<tool id="data_manager_snpeff_databases" name="SnpEff Databases" version="3.4" tool_type="manage_data">
	<description>Read the list of available snpEff databases</description>
	<requirements>
		<requirement type="package" version="3.4">snpEff</requirement>
	</requirements>
	<command interpreter="python">
        data_manager_snpEff_databases.py --jar_path \$SNPEFF_JAR_PATH/snpEff.jar "$out_file"
        </command>
	<inputs>

It should only need to be run once for a snpEff version, 
since it populates the SnpEff Download data manager from the snpEff config file.

For information about snpEff:    http://snpEff.sourceforge.net

Please cite:
"A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3.", Cingolani P, Platts A, Wang le L, Coon M, Nguyen T, Wang L, Land SJ, Lu X, Ruden DM. Fly (Austin). 2012 Apr-Jun;6(2):80-92. PMID: 22728672 [PubMed - in process]

	</help>
</tool>