Repository revision
25:8f7546d0b925

Repository 'hmdb_ms_search'
hg clone https://toolshed.g2.bx.psu.edu/repos/fgiacomoni/hmdb_ms_search

HMDB MS search tool metadata
Miscellaneous
search by masses on HMDB v5 online LCMS bank
wsdl_hmdb
toolshed.g2.bx.psu.edu/repos/fgiacomoni/hmdb_ms_search/wsdl_hmdb/1.7.2
1.7.2
None
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/fgiacomoni/hmdb_ms_search/wsdl_hmdb/1.7.2 (this tool)
toolshed.g2.bx.psu.edu/repos/fgiacomoni/hmdb_ms_search/wsdl_hmdb/1.7.1
toolshed.g2.bx.psu.edu/repos/fgiacomoni/hmdb_ms_search/wsdl_hmdb/1.7.0
toolshed.g2.bx.psu.edu/repos/fgiacomoni/hmdb_ms_search/wsdl_hmdb/1.6.1
toolshed.g2.bx.psu.edu/repos/fgiacomoni/hmdb_ms_search/wsdl_hmdb/1.6.0
toolshed.g2.bx.psu.edu/repos/fgiacomoni/hmdb_ms_search/wsdl_hmdb/2018-10-01
toolshed.g2.bx.psu.edu/repos/fgiacomoni/hmdb_ms_search/wsdl_hmdb/2016-11-28
toolshed.g2.bx.psu.edu/repos/fgiacomoni/hmdb_ms_search/wsdl_hmdb/2016-01-28
wsdl_hmdb
Requirements (dependencies defined in the <requirements> tag set)
name version type
perl-data-dumper 2.161 package
perl-html-template 2.97 package
perl-soap-lite 1.19 package
perl-lwp-simple 6.15 package
perl-libwww-perl 6.15 package
perl-uri 1.74 package
perl-text-csv 1.97 package
perl-xml-twig 3.52 package
perl-www-mechanize 1.91 package
Additional information about this tool
perl $__tool_directory__/wsdl_hmdb.pl
        #if str($input_type.choice) == "YES":
            -masses "${input_type.masses}"
            -header_choice "${input_type.header.header_choice}"
            #if str($input_type.header.header_choice) == "yes":
                -nblineheader "${$input_type.header.nbHeader}"
            #end if
            -colfactor "${input_type.colfactor}"
            -output_tabular "$variableMetadata" -output_html "$HmdbOutWeb" -output_xlsx "$HmdbOutXlsx"
        #else:
            -mass "${input_type.mass}"
            -output_tabular "$variableMetadata2" -output_html "$HmdbOutWeb2" -output_xlsx "$HmdbOutXlsx2"
        #end if
        
        -mode "${mode_type.mode}"
        
        #if str($mode_type.mode) == "positive":
        	-adduct_type "${mode_type.data_positive_adducts}"
        #elif str($mode_type.mode) == "negative":
        	-adduct_type "${mode_type.data_negative_adducts}"
        #elif str($mode_type.mode) == "neutral":
        	-adduct_type "${mode_type.data_neutral_adducts}"
        #end if
        
        -delta "$delta" -maxquery "$maxquery"
        -advancedFeatures "$advancedFeatures"
        -verbose "$verbose"
        
  
None
False
Functional tests
name inputs outputs required files
Test-1 input_type|mass: 175.01 238.19 420.16 780.32 956.25 1100.45
input_type|choice: NO
delta: 0.05
maxquery: 5
mode_type|mode: positive
name: value
name: value
name: value
value