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mksamur / RTCGAToolbox

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Removed spurious runDate argument to .makeExprMat in miRNA_Array #14

Closed humberto-ortiz closed 7 years ago

humberto-ortiz commented 9 years ago

Trying to download miRNAArray data results in an error:

> gbm <-getFirehoseData (dataset="GBM", runDate="20150204",
+ Clinic=FALSE, miRNA_Array=TRUE)
gdac.broadinstitute.org_GBM.Merge_mirna__h_mirna_8x15k__unc_edu__Level_3__unc_DWD_Batch_adjusted__data.Level_3.2015020400.0.0.tar.gz
trying URL 'http://gdac.broadinstitute.org/runs/stddata__2015_02_04/data/GBM/20150204/gdac.broadinstitute.org_GBM.Merge_mirna__h_mirna_8x15k__unc_edu__Level_3__unc_DWD_Batch_adjusted__data.Level_3.2015020400.0.0.tar.gz'
Content type 'application/x-gzip' length 2517902 bytes (2.4 MB)
==================================================
downloaded 2.4 MB

gdac.broadinstitute.org_GBM.Merge_mirna__h_mirna_8x15k__unc_edu__Level_3__unc_DWD_Batch_adjusted__data.Level_3.2015020400.0.0
 Error in .makeExprMat(export.file, "", "miRNAArray", 100, TRUE, runDate) :

unused argument (runDate)

The runDate parameter should not be provided to .makeExprMat

I have tested the modified package and it can load miRNA_Array data.