Mercurial > repos > tomnl > create_msp
comparison create_sqlite_db.R @ 14:6d9a3b70504d draft
planemo upload for repository https://github.com/computational-metabolomics/mspurity-galaxy commit 04023134d8f28e85927ca293373c506484149ead-dirty
| author | tomnl |
|---|---|
| date | Fri, 01 Jun 2018 15:26:55 -0400 |
| parents | 29f958388489 |
| children | c3190cff5cd2 |
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| 13:29f958388489 | 14:6d9a3b70504d |
|---|---|
| 205 } | 205 } |
| 206 | 206 |
| 207 | 207 |
| 208 } | 208 } |
| 209 | 209 |
| 210 add_extra_table_elucidation('metfrag_results', opt$metfrag_result, con, filter_Score=0.6, filter_Rank=NA) | 210 add_extra_table_elucidation('metfrag_results', opt$metfrag_result, con) |
| 211 add_extra_table_elucidation('sirius_csifingerid_results', opt$sirius_csifingerid_result, con, filter_Score=NA, filter_Rank=5) | 211 add_extra_table_elucidation('sirius_csifingerid_results', opt$sirius_csifingerid_result, con) |
| 212 | 212 |
| 213 | 213 |
| 214 if (is.null(xset)){ | 214 if (is.null(xset)){ |
| 215 DBI::dbWriteTable(con, name='xset_classes', value=xa@xcmsSet@phenoData, row.names=TRUE) | 215 DBI::dbWriteTable(con, name='xset_classes', value=xa@xcmsSet@phenoData, row.names=TRUE) |
| 216 add_probmetab(opt$probmetab_result, xset, con) | 216 add_probmetab(opt$probmetab_result, xset, con) |