Skip to content

issues Search Results · repo:CIMAC-CIDC/cidc-schemas language:Python

Filter by

38 results
 (73 ms)

38 results

inCIMAC-CIDC/cidc-schemas (press backspace or delete to remove)

CIMAC-CIDC/cidc-schemas
tcr_fastq and tcr_adaptive is_artifact value is unclear

https://github.com/CIMAC-CIDC/cidc-schemas/blob/a041af26493861a60f10126c0fd7203ece8bdae0/cidc_schemas/schemas/templates/assays/tcr_fastq_template.json#L54-L59 TCR is the only exception to the rule of ...
  • crouchcd
  • 2
  • Opened 
    on Feb 16, 2023
  • #575

CIMAC-CIDC/cidc-schemas
parse_clinical() fails if the file is encoded with a Byte Order Mark

Your operating system name and version MacOS 12.6 Any details about your local setup that might be helpful in troubleshooting I tried to upload a clinical data file (Demographics) using the CLI, but ...
  • crouchcd
  • Opened 
    on Oct 31, 2022
  • #561

CIMAC-CIDC/cidc-schemas
Create a Patch(Builder) object to simplify code

Would creating some sort of InProgressMetadata class with process_property and set_value methods on it allow us to cut down on the number of arguments these functions take by storing data in instance attributes? ...
  • curlup
  • Opened 
    on Sep 2, 2020
  • #365

CIMAC-CIDC/cidc-schemas
mIF template URL error

Metadata file for mIF gives error 404, the file lives at https://cimac-cidc.github.io/cidc-schemas/docs/templates.metadata.mIF_template.html
  • roshni-b
  • 1
  • Opened 
    on Aug 29, 2019
  • #149

CIMAC-CIDC/cidc-schemas
Template validations no longer catch missing fields

The logic in XlTemplateReader.validate relies on excel template schemas having a required property containing a list of required fields in the template. The recent updates to the template schemas removed ...
  • jacoblurye
  • 1
  • Opened 
    on Aug 29, 2019
  • #148

CIMAC-CIDC/cidc-schemas
add descriptions to template html docs

Screen Shot 2019-08-28 at 3 54 47 PM
  • roshni-b
  • Opened 
    on Aug 28, 2019
  • #144

CIMAC-CIDC/cidc-schemas
Error in rendering MIF-input metadata fields

There s a field called properties which doesn t look right. - mif_input.html - mif_input.json Screen Shot 2019-08-27 at 12 07 27 PM
bug
  • roshni-b
  • Opened 
    on Aug 26, 2019
  • #137

CIMAC-CIDC/cidc-schemas
`prismify` shouldn't need a schema path argument

https://github.com/CIMAC-CIDC/cidc-schemas/blob/2ddbe969d1f64bd9116726379c8c9431f3b84b0d/cidc_schemas/prism.py#L510 Instead, we should look up schema paths from assay_hints, which I think should be renamed ...
  • jacoblurye
  • Opened 
    on Aug 26, 2019
  • #135

CIMAC-CIDC/cidc-schemas
CyTOF panel name

There is a field called PANEL NAME which doesn t make sense. The panels are defined in the antibody information tab and are really specific to each batch. It only makes sense to name the panels if we ...
  • jim-bo
  • 1
  • Opened 
    on Aug 26, 2019
  • #133

CIMAC-CIDC/cidc-schemas
CyTOF metadata fields not well documented

Much of the non-trivial fields have no explanation of how to properly fill them and have minimal validation (i.e. string). Specifically: Data pre-processing: PROCESSED FCS FILENAME | SOURCE FCS FILENAMES ...
  • jim-bo
  • Opened 
    on Aug 26, 2019
  • #132
Issue origami icon

Learn how you can use GitHub Issues to plan and track your work.

Save views for sprints, backlogs, teams, or releases. Rank, sort, and filter issues to suit the occasion. The possibilities are endless.Learn more about GitHub Issues
ProTip! 
Restrict your search to the title by using the in:title qualifier.
Issue origami icon

Learn how you can use GitHub Issues to plan and track your work.

Save views for sprints, backlogs, teams, or releases. Rank, sort, and filter issues to suit the occasion. The possibilities are endless.Learn more about GitHub Issues
ProTip! 
Press the
/
key to activate the search input again and adjust your query.
Issue search results · GitHub