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workflow4metabolomics / multivariate

PCA, PLS(-DA), and OPLS(-DA)
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Fails for studies with multiple Assays #3

Closed sneumann closed 7 years ago

sneumann commented 7 years ago

Hi, for MTBLS338 I get 

2017-01-27T12:37:24.129081966Z Error in read.table(argVc["dataMatrix_in"], check.names = FALSE, header = TRUE,  : 
2017-01-27T12:37:24.129135409Z   no lines available in input
2017-01-27T12:37:24.129147410Z Calls: t -> as.matrix -> read.table
2017-01-27T12:37:24.129151256Z Execution halted

The HTML of the downloader does not contain m_*.* files, 

 Metabolights study
Investigation file
Study files:
s_MTBLS338.txt
Assay files:
a_MTBLS338_GCMS_Root_met.txt
a_MTBLS338_Root_metabolite_profiling_mass_spectrometry_targeted.txt
a_MTBLS338_negative_Root_met_ms.txt
a_MTBLS338_positive_Root_met_ms.txt

although MTBLS338 has four of them, see ftp://ftp.ebi.ac.uk/pub/databases/metabolights/studies/public/MTBLS338

[FILE] m_MTBLS338_GCMS_Root_met_v2_maf> Oct 04 15:34    305K [VIEW] [DOWNLOAD]
[FILE] m_MTBLS338_Root_metabolite_prof> Oct 04 15:34    823K [VIEW] [DOWNLOAD]
[FILE] m_MTBLS338_negative_Root_met_ms> Oct 04 15:34   5442K [VIEW] [DOWNLOAD]
[FILE] m_MTBLS338_positive_Root_met_ms> Oct 04 15:34   6635K [VIEW] [DOWNLOAD]
sneumann commented 7 years ago

Sorry, reporting to the downloader now: https://github.com/workflow4metabolomics/mtbls-dwnld/issues/2