cytomining CytoTable issues

cytomining / CytoTable

Transform CellProfiler and DeepProfiler data for processing image-based profiling readouts with Pycytominer and other Cytomining tools.

https://cytomining.github.io/CytoTable/

BSD 3-Clause "New" or "Revised" License

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issues

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Bump certifi from 2024.2.2 to 2024.7.4

#215 dependabot[bot] closed 2 days ago
0
Reduce sorting memory resource requirements

#214 d33bs opened 4 days ago
0
Bump requests from 2.31.0 to 2.32.2

#213 dependabot[bot] closed 3 days ago
0
Use real AWS S3 data tests and apply related fixes

#212 d33bs closed 4 days ago
1
Possible Parsl manager persistence after CytoTable processing

#211 d33bs opened 1 week ago
0
Bump urllib3 from 1.26.18 to 1.26.19

#210 dependabot[bot] closed 2 weeks ago
0
Add timeout for large directory parsing in source processing

#209 d33bs opened 3 weeks ago
0
`cloudpathlib` fails with `no_sign_request=True`

#208 d33bs opened 3 weeks ago
3
Bump flask-cors from 4.0.0 to 4.0.1

#207 dependabot[bot] closed 1 month ago
1
Bump jinja2 from 3.1.3 to 3.1.4

#206 dependabot[bot] closed 1 month ago
0
Bump werkzeug from 3.0.1 to 3.0.3

#205 dependabot[bot] closed 1 month ago
1
Increase sorting scalability via CytoTable metadata columns

#204 d33bs closed 3 weeks ago
5
Extract or somehow store data from CellProfiler `experiment` tables in CytoTable output

#203 d33bs opened 2 months ago
0
Retain extracted, unjoined table output when joining data in CytoTable

#202 d33bs opened 2 months ago
0
Define ideal compartment and metadata table relationships for joins to avoid returning NA results

#201 d33bs opened 2 months ago
0
Provide data statistics report as part of CytoTable output

#200 d33bs opened 2 months ago
1
Use declarative version specification for Ubuntu GitHub Actions runners

#199 d33bs closed 2 months ago
1
Error on processing `moto`-based files within scheduled, un-locked dependency tests

#198 d33bs closed 4 days ago
2
Update `ubuntu-latest` to specific version for GH Actions os specifications

#197 d33bs closed 2 months ago
0
Avoid `macos-latest` Python version compatibility issues in GitHub Actions runner images

#196 d33bs closed 2 months ago
1
Resolve MacOS Python setup issues within GitHub Actions after recent GitHub Update

#195 d33bs closed 2 months ago
0
Enable Parsl app concurrency with futures

#194 d33bs closed 2 months ago
1
Add large test data cases to help detect non-deterministic challenges

#193 d33bs closed 4 days ago
0
Verify concurrency and make relevant changes to improve multithreaded or multiprocessing capabilities

#192 d33bs closed 2 months ago
1
Enable `_concat_source_group` single file pass-through to avoid rewrites

#191 d33bs opened 2 months ago
0
Add capability to sample source datasets by percent or rowcount to increase speed of testing

#190 d33bs opened 2 months ago
0
Consistently handle `Metadata_Well` and `Metadata_Plate` column renaming and join specification

#189 d33bs opened 2 months ago
0
Add tablenumber capabilities to distinguish repeated image numbers from multiple datasets

#188 d33bs opened 2 months ago
0
Verify how large floating-point numbers are exported

#187 d33bs opened 2 months ago
2
Bump idna from 3.6 to 3.7

#186 dependabot[bot] closed 2 months ago
1
Add SBOM file to repository

#185 d33bs opened 2 months ago
0
Remove `SECURITY.md` to rely on organization-wide community health file

#184 d33bs closed 2 months ago
1
Use compartment tables as basis of preset joins

#183 d33bs closed 2 months ago
1
Add order to limit and offset queries for deterministic results

#182 d33bs closed 2 months ago
1
Add join concatenation parameter distinction

#181 d33bs opened 3 months ago
0
Use OpenLineage API (or other similar tooling) as basis for CytoTable Paquet metadata output

#180 d33bs opened 3 months ago
0
Document Parsl SlurmProvider usage for CU Alpine HPC

#179 d33bs opened 3 months ago
0
Distinguish between joined and unjoined concatenation

#178 d33bs opened 3 months ago
0
Explore pyarrow parquet write_dataset

#177 d33bs opened 3 months ago
0
Outline the best settings for Parsl configuration with CytoTable

#176 d33bs opened 3 months ago
7
Explore value sorting determinism (and possible changes)

#175 d33bs closed 3 weeks ago
1
Enable Python 3.12 compatibility through dependency-based updates

#174 d33bs closed 3 months ago
1
Bump scipy from 1.9.3 to 1.10.0

#173 dependabot[bot] closed 3 months ago
0
Add python 3.11 to automated tests

#172 d33bs closed 3 months ago
1
Update to remove Python 3.8 support (~October 2024)

#171 d33bs opened 3 months ago
0
Remove poetry lockfile to better project testing with scheduled trigger

#170 d33bs closed 3 months ago
5
`WorkerLost: Task failure due to loss of worker` Failure during join data creation using HTE Parsl config with `SQ00014613.sqlite`

#169 d33bs opened 3 months ago
0
Remove duplicative all-at-once concatenate with join operations

#168 d33bs closed 3 months ago
1
Add weekly testing for preventative awareness of external changes

#167 d33bs closed 3 months ago
1
Set upper limit on DuckDB version (`<0.10.0`) to avoid Arrow errors

#166 d33bs closed 3 months ago
1