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fpbarthel / GLASS

GLASS consortium
MIT License
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Dead filepoints for GLSS-MD-0112-TP, GLSS-SM-R098-R2 and GLSS-SM-R105-R2 (all WXS) #100

Closed fpbarthel closed 5 years ago

fpbarthel commented 5 years ago 
>>> all_aliquots - set(manifest.selected_aliquots)
{'GLSS-MD-0112-TP-01D-WXS-P1B0I2', 'GLSS-SM-R098-R2-01D-WXS-462GI8', 'GLSS-SM-R105-R2-01D-WXS-Y9SY6I'}

Looks like I updated these to point to a path on /fastscratch whereas in fact these are on /projects

fpbarthel commented 5 years ago

Resolved.

UPDATE analysis.files SET file_path = '/projects/verhaak-lab/GLASS-analysis/results/align/bqsr/' || file_name WHERE file_format = 'aligned BAM' AND aliquot_barcode = 'GLSS-SM-R105-R2-01D-WXS-Y9SY6I';
UPDATE analysis.files SET file_path = '/projects/verhaak-lab/GLASS-analysis/results/align/bqsr/' || file_name WHERE file_format = 'aligned BAM' AND aliquot_barcode = 'GLSS-SM-R098-R2-01D-WXS-462GI8';
UPDATE analysis.files SET file_path = '/projects/verhaak-lab/GLASS-analysis/results/align/bqsr/' || file_name WHERE file_format = 'aligned BAM' AND aliquot_barcode = 'GLSS-MD-0112-TP-01D-WXS-P1B0I2';