Mercurial > repos > iuc > mothur_summary_shared
comparison test-data/biosample.source @ 0:eb727b7b76b4 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mothur commit a9d1e0debcd357d8080a1c6c5f1d206dd45a7a4d
author | iuc |
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date | Fri, 19 May 2017 05:23:17 -0400 |
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-1:000000000000 | 0:eb727b7b76b4 |
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1 if (package == "soil") { | |
2 out << "#MIMARKS.survey.soil.4.0" << endl; | |
3 if (requiredonly) { | |
4 out << "#{sample name} {description of sample} {sample title} {description of library_construction_protocol} {http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Undef&id=408169&lvl=3&keep=1&srchmode=1&unlock}" << endl; | |
5 out << "#{text} {text} {text} {text} {controlled vacabulary}" << endl; | |
6 out << "*sample_name *description *sample_title *seq_methods *organism" << endl; | |
7 }else { | |
8 out << "#{sample name} {description of sample} {sample title} {description of library_construction_protocol} {http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Undef&id=408169&lvl=3&keep=1&srchmode=1&unlock} {soil classification from the FAO World Reference Database for Soil Resources}" << endl; | |
9 out << "#{text} {text} {text} {text} {controlled vacabulary} {{term}}" << endl; | |
10 out << "*sample_name *description *sample_title *seq_methods *organism fao_class" << endl; | |
11 } | |
12 } | |
13 | |
14 if ((package == "soil") ) {} | |
15 | |
16 vector<string> requiredFieldsForPackage; | |
17 requiredFieldsForPackage.push_back("sample_name"); | |
18 requiredFieldsForPackage.push_back("description"); | |
19 requiredFieldsForPackage.push_back("sample_title"); | |
20 requiredFieldsForPackage.push_back("seq_methods"); | |
21 requiredFieldsForPackage.push_back("organism"); | |
22 | |
23 | |
24 if (packageType == "MIMARKS.survey.soil.4.0") {} |