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Export tools includes Galaxy prefix
Exported files look like this:
100_iCTR0465_diMN32_rep2.bed
101_iCTR0594_diMN32_rep1.bed
102_iCTR0594_diMN32_rep2.bed
103_iCTR0702_diMN32_rep1.bed
104_iCTR0702_diMN32_rep2.bed
71_iALS0BUU_diMN32_rep1.bed
72_iALS0BUU_diMN32_rep2.bed
73_iALS0LPK_diMN32_rep1.bed
74_iALS0LPK_diMN32_rep2.bed
Ideally they'd look like this:
‘100_iCTR0465_diMN32_rep2.bed’ -> ‘iCTR0465_diMN32_rep2.bed’
‘101_iCTR0594_diMN32_rep1.bed’ -> ‘iCTR0594_diMN32_rep1.bed’
‘102_iCTR0594_diMN32_rep2.bed’ -> ‘iCTR0594_diMN32_rep2.bed’
‘103_iCTR0702_diMN32_rep1.bed’ -> ‘iCTR0702_diMN32_rep1.bed’
‘104_iCTR0702_diMN32_rep2.bed’ -> ‘iCTR0702_diMN32_rep2.bed’
‘71_iALS0BUU_diMN32_rep1.bed’ -> ‘iALS0BUU_diMN32_rep1.bed’
‘72_iALS0BUU_diMN32_rep2.bed’ -> ‘iALS0BUU_diMN32_rep2.bed’
‘73_iALS0LPK_diMN32_rep1.bed’ -> ‘iALS0LPK_diMN32_rep1.bed’
‘74_iALS0LPK_diMN32_rep2.bed’ -> ‘iALS0LPK_diMN32_rep2.bed’
I'm using this bash one-liner:
for i in *; do mv "$i" "${i#*_}"; done
Could you incorporate this to run automatically in the tool? ty
Cannot load data from local (Failed: Internal Server Error (500))
Tried uploading a few local files, but I'm getting error 500.
Downloaded collection gives error when expanded
I'm not sure if this is a Galaxy issue or something on my end.
Trying to download from Protocol Selection (diMN18) - ATAC Pipeline collection 156: bamCoverage on collection 131. I get this error when I double-click expand:
And this error when I go through command line:
> tar -xvzf 156_\ bamCoverage\ on\ collection\ 131.tgz
x bamCoverage on collection 131/iALS0BUU_diMN18_rep1.bigwig
x bamCoverage on collection 131/iALS0LPK_diMN18_rep1.bigwig
x bamCoverage on collection 131/iALS6ZLD_diMN18_rep1.bigwig
x bamCoverage on collection 131/iALS7VCZ_diMN18_rep1.bigwig
x bamCoverage on collection 131/iALS29_diMN18_rep1.bigwig
x bamCoverage on collection 131/iALS29_ISO_diMN18_rep1.bigwig: (Empty error message)
tar: Error exit delayed from previous errors.
Add bowtie2 index builder data manager, and fastq data manager to tools.yml
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