Mercurial > repos > fgiacomoni > massbank_ws_searchspectrum
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Init repository with last massbank_ws_searchspectrum master version
author | fgiacomoni |
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date | Wed, 19 Apr 2017 11:31:58 -0400 |
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## ****** MassBank Searching Spectra environnemnt : ****** ## # version Janv 2017 F Giacomoni - INRA - METABOHUB - workflow4metabolomics.org core team ## --- PERL compilator / libraries : --- ## $ perl -v This is perl, v5.10.1 (*) built for x86_64-linux-thread-multi # libs CORE PERL : use strict ; use warnings ; use Carp qw (cluck croak carp) ; use Exporter ; use Data::Dumper ; use Getopt::Long ; use FindBin ; use Encode; use POSIX ; # libs CPAN PERL : $ perl -e 'use Text::CSV' use Text::CSV ; use JSON ; use HTML::Template ; use SOAP::Lite ; use threads; use threads::shared; use Thread::Queue; use LWP::UserAgent; use LWP::Simple ; use File::Basename; $ sudo perl -MCPAN -e shell cpan> install Text::CSV # libs pfem PERL : this lib were included in lib dir. use conf::conf qw( :ALL ) ; use formats::csv qw( :ALL ) ; -- ## --- Conda compliant --- ## This tool and its PERL dependencies are "Conda compliant". The requirements section in the Xml file is still commented, waiting for "Conda" deployment improvement in Galaxy project. ## --- R bin and Packages : --- ## No interaction with R -- ## --- Binary dependencies --- ## No interaction with binary - use only MassBank (JP or EU server) SOAP method (http://www.massbank.jp/api/services/MassBankAPI?wsdl) -- ## --- Config : --- ## JS and CSS (used in HTML output format) are now hosted on cdn.rawgit.com server - no local config needed PS :If Galaxy can't find the file "massbank.tmpl", perform this command line : perl -pi -e 's/\r//g' conf_massbank.cfg -- ## --- XML HELP PART --- ## one image : massbank_spectra.png -- ## --- DATASETS OR TUTORIAL --- ## Please find help on W4M: http://workflow4metabolomics.org/howto -- ## --- ??? COMMENTS ??? --- ## If Galaxy can't find the file "massbank.tmpl", perform this command line : " perl -pi -e 's/\r//g' " on the conf file "conf_massbank.cfg". To use fully functionalities of HTML output format file : - check that sanitize_all_html option in universe_wsgi.ini file is uncomment and set to FALSE. --