Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / nmdp-bioinformatics/py-ard issues and pull requests

#344 - warning using pyard 1.5.3 on python 3.13.1

Issue - State: open - Opened by mmaiers-nmdp 3 days ago
Labels: bug

#343 - Add setuptools

Pull Request - State: open - Opened by pbashyal-nmdp 3 days ago
Labels: bug

#342 - after clean install no such column: serology

Issue - State: open - Opened by mmaiers-nmdp 4 days ago - 1 comment
Labels: bug

#341 - make install fails on python 3.13.1

Issue - State: open - Opened by mmaiers-nmdp 4 days ago
Labels: bug

#340 - Fix issue when floating point numbers are present in batch

Pull Request - State: closed - Opened by pbashyal-nmdp about 1 month ago
Labels: bug

#339 - pyard-reduce-csv doesn't validate

Issue - State: closed - Opened by mmaiers-nmdp about 1 month ago - 2 comments
Labels: bug

#338 - `validate()` should mark `NNNN` alleles for DRB3/4/5

Issue - State: open - Opened by pbashyal-nmdp 3 months ago - 2 comments
Labels: enhancement

#337 - dupes now appearing in "G" mode

Issue - State: open - Opened by mmaiers-nmdp 3 months ago - 3 comments

#336 - Add an option to get the latest MACD

Issue - State: open - Opened by pbashyal-nmdp 3 months ago
Labels: enhancement

#335 - `/ard/{allele}` endpoint for `lgx` reduction

Pull Request - State: closed - Opened by pbashyal-nmdp 4 months ago
Labels: enhancement

#334 - Only single `lgx` reductions

Pull Request - State: closed - Opened by pbashyal-nmdp 4 months ago
Labels: enhancement

#333 - Reduce to single lowest numbered allele

Issue - State: closed - Opened by pbashyal-nmdp 4 months ago - 1 comment
Labels: bug, enhancement

#332 - Homozygosify GL String, Suppress loci

Pull Request - State: closed - Opened by pbashyal-nmdp 6 months ago
Labels: enhancement

#331 - suppress output of individual loci in batch mode when producing glstring

Issue - State: closed - Opened by mmaiers-nmdp 6 months ago
Labels: enhancement

#330 - add support for new WHO antigen specificies

Issue - State: open - Opened by mmaiers-nmdp 6 months ago - 1 comment
Labels: enhancement

#329 - pyard-service Docker changes

Pull Request - State: closed - Opened by pbashyal-nmdp 7 months ago
Labels: enhancement

#328 - Support for Python 3.12

Pull Request - State: closed - Opened by pbashyal-nmdp 8 months ago
Labels: bug, enhancement

#327 - Redux mode for first-field DNA specificities

Issue - State: open - Opened by lgragert 9 months ago - 3 comments

#326 - Ping reductions for duplicates

Pull Request - State: closed - Opened by pbashyal-nmdp 9 months ago
Labels: bug

#325 - Alleles with duplicates fails reduction

Issue - State: closed - Opened by pbashyal-nmdp 9 months ago
Labels: bug

#324 - Development doesn't work in Python 3.12

Issue - State: closed - Opened by pbashyal-nmdp 9 months ago - 4 comments
Labels: bug

#323 - Make `ping` mode default

Pull Request - State: closed - Opened by pbashyal-nmdp 9 months ago - 1 comment
Labels: bug

#322 - Fix `exon` reductions for 2 field alleles

Pull Request - State: closed - Opened by pbashyal-nmdp 10 months ago
Labels: bug

#320 - `exon` reduction should expand to `W` for 2 field alleles

Issue - State: closed - Opened by pbashyal-nmdp 10 months ago
Labels: bug, enhancement

#319 - Bump gunicorn from 20.1.0 to 22.0.0

Pull Request - State: closed - Opened by dependabot[bot] 10 months ago
Labels: dependencies

#318 - Bump version: 1.1.1 → 1.1.2

Pull Request - State: closed - Opened by pbashyal-nmdp 11 months ago

#317 - Bug fix to support zip and no compression besides gzip.

Pull Request - State: closed - Opened by pbashyal-nmdp 11 months ago
Labels: bug

#316 - Bug fix to allow uncompressed output

Pull Request - State: closed - Opened by ravanamerongen 11 months ago - 1 comment

#315 - Default to `lgx` redux

Pull Request - State: closed - Opened by pbashyal-nmdp 11 months ago - 1 comment
Labels: enhancement

#314 - MAC lookup error

Pull Request - State: closed - Opened by pbashyal-nmdp 11 months ago
Labels: bug

#313 - `A*68:AJEBX` doesn't contain invalid allele and is not reversible

Issue - State: closed - Opened by pbashyal-nmdp 12 months ago
Labels: bug

#311 - Make `lgx` (ARD) the default for `redux()`

Issue - State: closed - Opened by pbashyal-nmdp 12 months ago
Labels: enhancement

#310 - Add XX mappings of Serology

Pull Request - State: closed - Opened by pbashyal-nmdp 12 months ago
Labels: enhancement

#309 - Fix DRBX mapping for`map_drb345_to_drbx`

Pull Request - State: closed - Opened by pbashyal-nmdp 12 months ago
Labels: bug

#308 - `map_drb345_to_drbx` setting in batch mode failing

Issue - State: closed - Opened by pbashyal-nmdp 12 months ago
Labels: bug

#307 - Remove Pandas Dependency

Issue - State: open - Opened by pbashyal-nmdp 12 months ago
Labels: enhancement

#306 - All recognized serology are valid.

Pull Request - State: closed - Opened by pbashyal-nmdp 12 months ago
Labels: bug

#305 - Serology reduction based on lgx

Pull Request - State: closed - Opened by pbashyal-nmdp 12 months ago
Labels: bug, enhancement

#304 - Allow all recognized serology to be considered valid.

Issue - State: closed - Opened by pbashyal-nmdp about 1 year ago - 1 comment
Labels: bug, enhancement

#303 - Support Serology Associated Antigens

Pull Request - State: closed - Opened by pbashyal-nmdp about 1 year ago
Labels: enhancement

#302 - Support Serology Associated Antigens

Issue - State: closed - Opened by pbashyal-nmdp about 1 year ago
Labels: enhancement

#301 - Fix XX CWD redux

Pull Request - State: closed - Opened by pbashyal-nmdp about 1 year ago
Labels: bug

#300 - CWD reduction of XX alleles fails

Issue - State: closed - Opened by pbashyal-nmdp about 1 year ago
Labels: bug

#299 - fix documentation error

Pull Request - State: closed - Opened by mmaiers-nmdp about 1 year ago

#298 - Upgrade numpy to fix `pkgutil.ImpImporter` installation failure on Python 3.12

Issue - State: closed - Opened by mihaitodor about 1 year ago - 4 comments

#297 - Fix serology sort

Pull Request - State: closed - Opened by pbashyal-nmdp about 1 year ago
Labels: bug

#296 - Incorrect smart sort for Serology

Issue - State: closed - Opened by pbashyal-nmdp about 1 year ago
Labels: bug

#295 - Update cwd2

Pull Request - State: closed - Opened by pbashyal-nmdp about 1 year ago
Labels: bug, enhancement

#294 - CWD mapping is incomplete

Issue - State: closed - Opened by pbashyal-nmdp about 1 year ago
Labels: bug

#293 - Make version of init() that doesn't load MACs

Issue - State: closed - Opened by lgragert about 1 year ago - 2 comments

#292 - Bump to 1.0.8

Pull Request - State: closed - Opened by pbashyal-nmdp about 1 year ago

#291 - Exceptions for v2 to v3 conversion

Issue - State: open - Opened by lcreteig about 1 year ago - 6 comments

#290 - Force 'lgx' reduction before 'S'?

Issue - State: closed - Opened by lcreteig over 1 year ago - 3 comments
Labels: bug

#289 - Create `similar` endpoint

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: enhancement

#288 - Change IPD/IMGT names to be consistent/correct

Issue - State: open - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#287 - Fix `validate()` in non-strict mode

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#286 - Add `/similar` endpoint to py-ard service

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: enhancement

#285 - `validate()` doesn't honor non-strict mode

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#284 - Bump version: 1.0.6 → 1.0.7

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago

#283 - Fix for V2s that are not valid

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#282 - Validates incorrect V2 versioned allele

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#281 - FInd similar alleles/MACs

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: enhancement

#280 - Fix Single field MICA, MICB Alleles failing

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#279 - Bump version: 1.0.5 → 1.0.6

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago

#278 - Import error py-ard 1.0.4 using Python 3.11.5

Issue - State: closed - Opened by mmaiers-nmdp over 1 year ago - 3 comments

#276 - Validation of allele specific MAC codes

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#275 - Check for individual allele in the serology mapped list

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#274 - MACs with "allele specific" codes expansion

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago - 4 comments
Labels: bug

#273 - Add non-strict mode

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: enhancement

#272 - Allow non strict mode

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: enhancement

#271 - Fix username on docker

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#270 - pandas dependency error

Issue - State: closed - Opened by rsajulga-nmdp over 1 year ago - 1 comment

#269 - add support for GL String Code

Issue - State: open - Opened by mmaiers-nmdp over 1 year ago
Labels: enhancement

#268 - add new redux mode T for transcript

Issue - State: open - Opened by mmaiers-nmdp over 1 year ago - 1 comment
Labels: enhancement

#267 - `os.getlogin()` is problematic on machines with no logins

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#266 - `pyard --validate` fails for non-cwd options

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#265 - Bump version: 1.0.2 → 1.0.3

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago

#264 - Add `--similar` option to `pyard` command

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: enhancement

#263 - Update `pyard-status` to show all the tables.

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#262 - `pyard-status` misses some tables

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#261 - `data_dir` Permissions

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#260 - Add `is_null` method to ARD

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: enhancement

#259 - Add `--lookup-mac` and `--expand-mac` to pyard command

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: enhancement

#258 - Add `--lookup-mac` to `pyard`

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: enhancement

#257 - add username to the default tempfile location

Issue - State: closed - Opened by mmaiers-nmdp over 1 year ago

#256 - new method is_null()

Issue - State: closed - Opened by mmaiers-nmdp over 1 year ago

#255 - Bump version: 1.0.1 → 1.0.2

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: release

#254 - The list should be checked for individual allele in the list

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#253 - Report if `data_dir` is not a writable directory.

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#252 - Reduce `lgx` the alleles from the `rel_dna_ser` before loading to database

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago - 1 comment
Labels: bug, enhancement

#251 - Error reducing MICA and HFE which have no : in the name

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#250 - sqlite3.OperationalError: unable to open database file

Issue - State: closed - Opened by rsajulga-nmdp over 1 year ago - 1 comment

#249 - lookup_mac() and expand_mac() are not (always) reversible

Issue - State: closed - Opened by lcreteig over 1 year ago - 4 comments

#248 - Validate MAC codes is alpha before looking up in db

Pull Request - State: closed - Opened by pbashyal-nmdp over 1 year ago
Labels: bug

#247 - Allele Redux fails when running without MAC codes

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago - 1 comment
Labels: bug

#246 - Issues in Serology Redux

Issue - State: closed - Opened by pbashyal-nmdp over 1 year ago - 10 comments
Labels: bug