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Updated package versions, and adapted tests for new pandas version, u…
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@JasonMendoza2008
JasonMendoza2008 committed Jul 21, 2023
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4 changes: 2 additions & 2 deletions CITATION.cff
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@@ -1,7 +1,7 @@
cff-version: 1.2.0
message: "If you use this software, please cite it as below.
Lhotte, R., Clichet, V., Usureau, C. & Taupin, J. (2022). Python Eplet Load Calculator (PELC) package
(Version 0.5.1) [Computer software]. https://doi.org/10.5281/zenodo.7254809"
(Version 0.5.2) [Computer software]. https://doi.org/10.5281/zenodo.7254809"
authors:
- family-names: Lhotte
given-names: Romain
Expand All @@ -16,7 +16,7 @@ authors:
given-names: Jean-Luc
orcid: https://orcid.org/0000-0002-5766-046X
title: Python Eplet Load Calculator (PELC) package
version: 0.5.1
version: 0.5.2
doi: doi.org/10.5281/zenodo.7254809
link: https://github.com/MICS-Lab/pecc
date-released: 2022-10-26
90 changes: 46 additions & 44 deletions README.md
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Expand Up @@ -89,65 +89,67 @@ expression '^.[pqr]*(\d+)' (interlocus2) either.


#### Unit tests
Tested on `Python 3.10.2` & `Python 3.11.1`.
Tested on `Python 3.10.6` & `Python 3.11.1`.
```
platform win32 -- Python 3.10.2, pytest-7.2.0, pluggy-1.0.0
plugins: anyio-3.6.2, mypy-0.10.3
collected 37 items
platform win32 -- Python 3.10.6, pytest-7.4.0, pluggy-1.2.0
plugins: mypy-0.10.3
collected 39 items
unit_tests_mypy.py .. [ 5%]
unit_tests_simple.py . [ 8%]
unit_tests_simple.py . [ 7%]
pelc\__init__.py . [ 10%]
pelc\_input_sanity_check.py . [ 13%]
pelc\_open_epregistry_databases.py . [ 16%]
pelc\_unexpected_alleles.py . [ 18%]
pelc\batch_eplet_comp.py . [ 21%]
pelc\batch_eplet_comp_aux.py . [ 24%]
pelc\output_type.py . [ 27%]
pelc\simple_comparison.py . [ 29%]
tests\__init__.py . [ 32%]
tests\base_loading_for_tests.py . [ 35%]
tests\test_eplet_mismatches.py ......... [ 59%]
tests\test_extract_key_to_rank_epletes.py .. [ 64%]
tests\test_is_valid_allele.py .. [ 70%]
tests\test_pelc.py .. [ 75%]
tests\test_same_locus.py .. [ 81%]
pelc\_input_sanity_check.py . [ 12%]
pelc\_open_epregistry_databases.py . [ 15%]
pelc\_unexpected_alleles.py . [ 17%]
pelc\batch_eplet_comp.py . [ 20%]
pelc\batch_eplet_comp_aux.py . [ 23%]
pelc\output_type.py . [ 25%]
pelc\simple_comparison.py . [ 28%]
tests\__init__.py . [ 30%]
tests\base_loading_for_tests.py . [ 33%]
tests\test_eplet_mismatches.py ......... [ 56%]
tests\test_extract_key_to_rank_epletes.py .. [ 61%]
tests\test_is_valid_allele.py .. [ 66%]
tests\test_only_one_chromosome.py .. [ 71%]
tests\test_pelc.py .. [ 76%]
tests\test_same_locus.py .. [ 82%]
tests\test_simple_comparison.py ..... [ 94%]
tests\test_unexpected_alleles.py .. [100%]
=================================== mypy =====================================
==================================== mypy =====================================
Success: no issues found in 19 source files
============================= 37 passed in 16.23s ============================
Success: no issues found in 20 source files
============================= 39 passed in 34.42s =============================
```

```
platform win32 -- Python 3.11.1, pytest-7.2.0, pluggy-1.0.0
platform win32 -- Python 3.11.1, pytest-7.2.2, pluggy-1.0.0
plugins: anyio-3.6.2, mypy-0.10.3
collected 37 items
collected 39 items
unit_tests_mypy.py .. [ 5%]
unit_tests_simple.py . [ 8%]
unit_tests_simple.py . [ 7%]
pelc\__init__.py . [ 10%]
pelc\_input_sanity_check.py . [ 13%]
pelc\_open_epregistry_databases.py . [ 16%]
pelc\_unexpected_alleles.py . [ 18%]
pelc\batch_eplet_comp.py . [ 21%]
pelc\batch_eplet_comp_aux.py . [ 24%]
pelc\output_type.py . [ 27%]
pelc\simple_comparison.py . [ 29%]
tests\__init__.py . [ 32%]
tests\base_loading_for_tests.py . [ 35%]
tests\test_eplet_mismatches.py ......... [ 59%]
tests\test_extract_key_to_rank_epletes.py .. [ 64%]
tests\test_is_valid_allele.py .. [ 70%]
tests\test_pelc.py .. [ 75%]
tests\test_same_locus.py .. [ 81%]
pelc\_input_sanity_check.py . [ 12%]
pelc\_open_epregistry_databases.py . [ 15%]
pelc\_unexpected_alleles.py . [ 17%]
pelc\batch_eplet_comp.py . [ 20%]
pelc\batch_eplet_comp_aux.py . [ 23%]
pelc\output_type.py . [ 25%]
pelc\simple_comparison.py . [ 28%]
tests\__init__.py . [ 30%]
tests\base_loading_for_tests.py . [ 33%]
tests\test_eplet_mismatches.py ......... [ 56%]
tests\test_extract_key_to_rank_epletes.py .. [ 61%]
tests\test_is_valid_allele.py .. [ 66%]
tests\test_only_one_chromosome.py .. [ 71%]
tests\test_pelc.py .. [ 76%]
tests\test_same_locus.py .. [ 82%]
tests\test_simple_comparison.py ..... [ 94%]
tests\test_unexpected_alleles.py .. [100%]
=================================== mypy =====================================
==================================== mypy =====================================
Success: no issues found in 19 source files
============================= 37 passed in 14.95s ============================
Success: no issues found in 20 source files
============================= 39 passed in 32.56s =============================
```


Expand Down Expand Up @@ -175,7 +177,7 @@ If you use this software, please cite it as below.
If you use this software, please cite it as below.
Lhotte, R., Clichet, V., Usureau, C. & Taupin, J. (2022).
Python Eplet Load Calculator (PELC) package (Version 0.5.1) [Computer software].
Python Eplet Load Calculator (PELC) package (Version 0.5.2) [Computer software].
https://doi.org/10.5281/zenodo.7254809
```

Expand All @@ -190,7 +192,7 @@ https://doi.org/10.5281/zenodo.7254809
month = oct,
year = 2022,
publisher = {Zenodo},
version = {0.5.1},
version = {0.5.2},
doi = {10.5281/zenodo.7526198},
}
```
2 changes: 1 addition & 1 deletion pyproject.toml
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@@ -1,6 +1,6 @@
[tool.poetry]
name = "pelc"
version = "0.5.1"
version = "0.5.2"
description = "Python Eplet Load Calculator"
authors = ["JasonMendoza2008 <[email protected]>"]
readme = "README.md"
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2 changes: 1 addition & 1 deletion tests/test_pelc.py
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Expand Up @@ -2,4 +2,4 @@


def test_version():
assert __version__ == '0.5.1'
assert __version__ == '0.5.2'

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