With new framework, can't find all files
Closed this issue · 5 comments
sgosline commented
Given the new changes, the package cannot find the ccrcc miRNA files, even though they claim to exist. These commands repro my error:
import cptac
dat=cptac.Ccrcc()
dat.list_data_sources()
dat.get_miRNA('washu')
I've attached a screenshot of the error
sgosline commented
I'm struggling to get any miRNA data (for other tumor types).
bm600 commented
Hey thanks for using CPTAC, we are working on the bug and it should be released soon
samuelpayne commented
We pushed a new update 1.5.1 which has the miRNA data (and also BCM as a source). Let me know i that doesn't work
sgosline commented
Thanks, I’ll check it out later this week. Currently bouncing back to another project, which raised another issue.
…-sara
---------------------------------------------------
Sara JC Gosline, PhD
Senior Scientist
Team Lead, Software & Algorithms
Pacific Northwest National Laboratory
Seattle, WA
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From: Sam Payne ***@***.***>
Date: Monday, September 11, 2023 at 11:26 AM
To: PayneLab/cptac ***@***.***>
Cc: Gosline, Sara J ***@***.***>, Author ***@***.***>
Subject: Re: [PayneLab/cptac] With new framework, can't find all files (Issue #35)
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We pushed a new update 1.5.1 which has the miRNA data (and also BCM as a source). Let me know i that doesn't work
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sgosline commented
I dont have the power to re-open, but this fails for ovarian:
cptac error: Requesting data failed with the following error: 404 Client Error: NOT FOUND for url: https://zenodo.org/api/files/153885f4-b0e8-4090-872c-20f36635b42a/washu-ov-miRNA-OV_precursor_miRNA_combined.tsv.gz (/Users/gosl241/Library/CloudStorage/OneDrive-PNNL/Documents/GitHub/candleDataProcessing/cptac/getCptacData.py, line 307)