bknisbac

Feature request: Interactive plots

1

The automatic plots generated are great! I think making at least some of the plots interactive (e.g. using plotly) so users could quickly identify the outlier samples could be very...

Heatmap error: ValueError: zero-size array to reduction operation minimum which has no identity

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After issue #4 was fixed, the ARD completes successfully but get a similar error at the Heatmap drawing phase: > * Saving report plots to /path/to/output/dir > Traceback (most recent...

dry_run logic in delete_entity_attributes

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Hi, When running e.g. delete_sample_attributes with `dry_run=True`, the current logic within delete_entity_attributes dictates that dry_run mode is active only if `delete_files=True`. I think it would be more intuitive and prevent...

I'm using firecloud-dalmatian==0.0.17 and get an error message when trying to import a public config: `wm.import_config('broadinstitute-gtex/rnaseq_bam_star_rsem_rnaseqc_v1-2_BETA_cfg')` --------------------------------------------------------------------------- UnboundLocalError Traceback (most recent call last) in ----> 1 wm.import_config('broadinstitute-gtex/rnaseq_bam_star_rsem_rnaseqc_v1-2_BETA_cfg') ~/anaconda3/lib/python3.7/site-packages/dalmatian/wmanager.py in import_config(self,...

The google cloud test file seems to have been moved somewhere else: `gsutil ls -l gs://isb-cgc-open/ccle/LUSC/DNA-Seq/C836.NCI-H1339.2.bam` `CommandException: One or more URLs matched no objects.` And the test/small.bam file is missing...