manual update of failing runs (#47)

Signed-off-by: vsoch <vsoch@users.noreply.github.com>

_data/language_counts.json

@@ -1,16 +1,16 @@
 {
     "unknown": 132,
-    "Python": 1698,
+    "Python": 1707,
     "Jupyter Notebook": 319,
     "Modelica": 1,
     "Shell": 24,
     "HTML": 71,
     "Perl": 44,
-    "R": 575,
-    "C++": 467,
+    "R": 579,
+    "C++": 468,
     "Java": 93,
     "C": 288,
-    "Rust": 18,
+    "Rust": 19,
     "JavaScript": 74,
     "AMPL": 1,
     "MATLAB": 36,
@@ -19,14 +19,14 @@
     "Clojure": 4,
     "Groovy": 5,
     "E": 1,
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+    "Julia": 61,
     "null": 16,
     "Matlab": 10,
     "Scala": 7,
     "TypeScript": 14,
-    "Nim": 6,
+    "Nim": 7,
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+    "C#": 17,
     "Pascal": 1,
     "TSQL": 2,
     "Kotlin": 2,

_data/repos.json

@@ -15916,7 +15916,66 @@
             "bioinformatics",
             "genomics"
         ],
-        "github/RosettaCommons/RFDesign": []
+        "github/RosettaCommons/RFDesign": [],
+        "github/ylab-hi/ScanExitronLR": [
+            "python",
+            "bioinformatics-tool",
+            "long-read-data"
+        ],
+        "github/bow/crimson": [
+            "bioinformatics",
+            "json",
+            "yaml",
+            "converter"
+        ],
+        "github/telatin/bamtocov": [
+            "bioinformatics",
+            "bam",
+            "coverage",
+            "alignment",
+            "gff",
+            "bed",
+            "ngs"
+        ],
+        "github/bokulich-lab/q2-fondue": [],
+        "github/rauschenberger/transreg": [],
+        "github/mrvollger/fibertools-rs": [],
+        "github/masadcv/FastGeodis": [
+            "deep-learning",
+            "gpu",
+            "pytorch"
+        ],
+        "github/VIB-PSB/MINI-EX": [],
+        "github/hildebra/sdm": [],
+        "github/dunnkers/fseval": [
+            "benchmarks",
+            "feature-rankers",
+            "feature-selection",
+            "wandb",
+            "hydra",
+            "machine-learning",
+            "python",
+            "feature-ranking",
+            "benchmarking",
+            "benchmarking-framework",
+            "scikit-learn",
+            "automl"
+        ],
+        "github/rqtl/qtl2": [],
+        "github/UrbanRuralSystems/ur-scape": [],
+        "github/AP6YC/ClusterValidityIndices.jl": [],
+        "github/tensorly/viz": [
+            "tensor-methods",
+            "tensorly",
+            "tensors",
+            "visualization"
+        ],
+        "github/adriancorrendo/metrica": [],
+        "github/FergusDonnan/PAHDecomp": [],
+        "github/jgrembi/riskCommunicator": [],
+        "github/sylvainprigent/napari-tracks-reader": [
+            "napari-plugin"
+        ]
     },
     "language": {
         "gitlab/chiemotono/mdcontactcom": "unknown",
@@ -20252,7 +20311,25 @@
         "github/Natsiopoulos/ARDL": "R",
         "github/jonathanHuwP/CrystalGrowthTracker": "Python",
         "github/mrvollger/rustybam": "Rust",
-        "github/RosettaCommons/RFDesign": "Python"
+        "github/RosettaCommons/RFDesign": "Python",
+        "github/ylab-hi/ScanExitronLR": "Python",
+        "github/bow/crimson": "Python",
+        "github/telatin/bamtocov": "Nim",
+        "github/bokulich-lab/q2-fondue": "Python",
+        "github/rauschenberger/transreg": "R",
+        "github/mrvollger/fibertools-rs": "Rust",
+        "github/masadcv/FastGeodis": "Python",
+        "github/VIB-PSB/MINI-EX": "Python",
+        "github/hildebra/sdm": "C++",
+        "github/dunnkers/fseval": "Python",
+        "github/rqtl/qtl2": "R",
+        "github/UrbanRuralSystems/ur-scape": "C#",
+        "github/AP6YC/ClusterValidityIndices.jl": "Julia",
+        "github/tensorly/viz": "Python",
+        "github/adriancorrendo/metrica": "R",
+        "github/FergusDonnan/PAHDecomp": "Python",
+        "github/jgrembi/riskCommunicator": "R",
+        "github/sylvainprigent/napari-tracks-reader": "Python"
     },
     "url": {
         "gitlab/chiemotono/mdcontactcom": "https://gitlab.com/chiemotono/mdcontactcom",
@@ -24588,7 +24665,25 @@
         "github/Natsiopoulos/ARDL": "https://github.com/Natsiopoulos/ARDL",
         "github/jonathanHuwP/CrystalGrowthTracker": "https://github.com/jonathanHuwP/CrystalGrowthTracker",
         "github/mrvollger/rustybam": "https://github.com/mrvollger/rustybam",
-        "github/RosettaCommons/RFDesign": "https://github.com/RosettaCommons/RFDesign"
+        "github/RosettaCommons/RFDesign": "https://github.com/RosettaCommons/RFDesign",
+        "github/ylab-hi/ScanExitronLR": "https://github.com/ylab-hi/ScanExitronLR",
+        "github/bow/crimson": "https://github.com/bow/crimson",
+        "github/telatin/bamtocov": "https://github.com/telatin/bamtocov",
+        "github/bokulich-lab/q2-fondue": "https://github.com/bokulich-lab/q2-fondue",
+        "github/rauschenberger/transreg": "https://github.com/rauschenberger/transreg",
+        "github/mrvollger/fibertools-rs": "https://github.com/mrvollger/fibertools-rs",
+        "github/masadcv/FastGeodis": "https://github.com/masadcv/FastGeodis",
+        "github/VIB-PSB/MINI-EX": "https://github.com/VIB-PSB/MINI-EX",
+        "github/hildebra/sdm": "https://github.com/hildebra/sdm",
+        "github/dunnkers/fseval": "https://github.com/dunnkers/fseval",
+        "github/rqtl/qtl2": "https://github.com/rqtl/qtl2",
+        "github/UrbanRuralSystems/ur-scape": "https://github.com/UrbanRuralSystems/ur-scape",
+        "github/AP6YC/ClusterValidityIndices.jl": "https://github.com/AP6YC/ClusterValidityIndices.jl",
+        "github/tensorly/viz": "https://github.com/tensorly/viz",
+        "github/adriancorrendo/metrica": "https://github.com/adriancorrendo/metrica",
+        "github/FergusDonnan/PAHDecomp": "https://github.com/FergusDonnan/PAHDecomp",
+        "github/jgrembi/riskCommunicator": "https://github.com/jgrembi/riskCommunicator",
+        "github/sylvainprigent/napari-tracks-reader": "https://github.com/sylvainprigent/napari-tracks-reader"
     },
     "description": {
         "gitlab/chiemotono/mdcontactcom": "",
@@ -28924,6 +29019,24 @@
         "github/Natsiopoulos/ARDL": "ARDL, ECM and Bounds-Test for Cointegration",
         "github/jonathanHuwP/CrystalGrowthTracker": "Extract face growth rate data from x-ray video of growing crystals.",
         "github/mrvollger/rustybam": "bioinformatics toolkit in rust",
-        "github/RosettaCommons/RFDesign": "Protein hallucination and inpainting with RoseTTAFold"
+        "github/RosettaCommons/RFDesign": "Protein hallucination and inpainting with RoseTTAFold",
+        "github/ylab-hi/ScanExitronLR": "A package for the characterization and quantification of exitron splicing events in long-read RNA-seq",
+        "github/bow/crimson": "Bioinformatics tool outputs converter to JSON or YAML",
+        "github/telatin/bamtocov": "  coverage extraction from BAM/CRAM files, supporting targets   \u00a0",
+        "github/bokulich-lab/q2-fondue": "Functions for reproducibly Obtaining and Normalizing Data re-Used from Elsewhere",
+        "github/rauschenberger/transreg": "Transfer learning",
+        "github/mrvollger/fibertools-rs": "Tools for fiberseq data written in rust. ",
+        "github/masadcv/FastGeodis": "Fast Implementation of Generalised Geodesic Distance Transform for CPU (OpenMP) and GPU (CUDA)",
+        "github/VIB-PSB/MINI-EX": "Motif-Informed Network Inference of cell type-specific gene regulatory networks in plants",
+        "github/hildebra/sdm": "Fast tool for sequence related tasks",
+        "github/dunnkers/fseval": "Benchmarking framework for Feature Selection and Feature Ranking algorithms ",
+        "github/rqtl/qtl2": "QTL analysis software for high-dimensional data and complex cross designs",
+        "github/UrbanRuralSystems/ur-scape": null,
+        "github/AP6YC/ClusterValidityIndices.jl": "A Julia package for Cluster Validity Indices (CVIs).",
+        "github/tensorly/viz": "Easy visualization and evaluation of matrix and tensor factorization models",
+        "github/adriancorrendo/metrica": "Prediction Performance Metrics",
+        "github/FergusDonnan/PAHDecomp": null,
+        "github/jgrembi/riskCommunicator": "An R package for estimating risk differences and relative risk measures",
+        "github/sylvainprigent/napari-tracks-reader": "napari reader plugin for tracking"
     }
 }

_data/repos_counts_languages.json

@@ -1,6 +1,6 @@
 {
-    "Python": 4733,
-    "R": 2085,
+    "Python": 4806,
+    "R": 2092,
     "Cpp": 388,
     "Js": 1462,
     "Go": 245

_data/stats.json

@@ -1,9 +1,9 @@
 {
-    "python_deps": 3890,
+    "python_deps": 3942,
     "cpp_deps": 388,
-    "r_deps": 2085,
+    "r_deps": 2092,
     "js_deps": 1462,
     "go_deps": 245,
-    "total_repos": 4333,
-    "total_parsed": 2253
+    "total_repos": 4352,
+    "total_parsed": 2281
 }

_repos/github/Gaiana/nirdust/README.md

@@ -0,0 +1,108 @@
+---
+title: github/Gaiana/nirdust
+layout: repo
+tipue_search_active: true
+exclude_from_search: true
+---
+# Software Credit
+
+|Manager|Name|Credit|
+|-------|----|------|
+|pypi|[asdf](http://asdf.readthedocs.io/)|0.074|
+|pypi|[matplotlib](https://matplotlib.org)|0.062|
+|pypi|[asdf-standard](http://asdf-standard.readthedocs.io/)|0.062|
+|pypi|[asdf-coordinates-schemas](https://github.com/asdf-format/asdf-coordinates-schemas)|0.053|
+|pypi|[asdf-wcs-schemas](https://github.com/spacetelescope/asdf-wcs-schemas)|0.053|
+|pypi|[typing-extensions](https://pypi.org/project/typing-extensions)|0.05|
+|pypi|[nirdust](https://github.com/Gaiana/nirdust)|0.05|
+|pypi|[cycler](https://github.com/matplotlib/cycler)|0.05|
+|pypi|[asdf-unit-schemas](https://pypi.org/project/asdf-unit-schemas)|0.05|
+|pypi|[jmespath](https://github.com/jmespath/jmespath.py)|0.05|
+|pypi|[pytest](https://pypi.org/project/pytest)|0.035|
+|pypi|[sphinx-astropy](https://pypi.org/project/sphinx-astropy)|0.024|
+|pypi|[numpy](https://pypi.org/project/numpy)|0.023|
+|pypi|[pytest-doctestplus](https://pypi.org/project/pytest-doctestplus)|0.017|
+|pypi|[coverage](https://github.com/nedbat/coveragepy)|0.016|
+|pypi|[scipy](https://pypi.org/project/scipy)|0.016|
+|pypi|[importlib-resources](https://pypi.org/project/importlib-resources)|0.016|
+|pypi|[pytest-astropy](https://pypi.org/project/pytest-astropy)|0.015|
+|pypi|[astropy](http://astropy.org)|0.014|
+|pypi|[sphinx](https://pypi.org/project/sphinx)|0.014|
+|pypi|[sphinx-rtd-theme](https://pypi.org/project/sphinx-rtd-theme)|0.01|
+|setup.py|github/Gaiana/nirdust|0.01|
+|pypi|[sphinx-automodapi](https://pypi.org/project/sphinx-automodapi)|0.01|
+|pypi|[packaging](https://pypi.org/project/packaging)|0.008|
+|pypi|[gwcs](https://github.com/spacetelescope/gwcs)|0.008|
+|pypi|[pytest-cov](https://pypi.org/project/pytest-cov)|0.007|
+|pypi|[check-manifest](https://pypi.org/project/check-manifest)|0.007|
+|pypi|[sphinx-asdf](https://pypi.org/project/sphinx-asdf)|0.007|
+|pypi|[graphviz](https://pypi.org/project/graphviz)|0.005|
+|pypi|[sphinx-changelog](https://pypi.org/project/sphinx-changelog)|0.005|
+|pypi|[ndcube](https://docs.sunpy.org/projects/ndcube/)|0.005|
+|pypi|[spectral-cube](https://pypi.org/project/spectral-cube)|0.004|
+|pypi|[Sphinx](https://pypi.org/project/Sphinx)|0.004|
+|pypi|[colorama](https://pypi.org/project/colorama)|0.004|
+|pypi|[readme-renderer](https://pypi.org/project/readme-renderer)|0.004|
+|pypi|[zest.releaser](https://pypi.org/project/zest.releaser)|0.004|
+|pypi|[wheel](https://pypi.org/project/wheel)|0.004|
+|pypi|[flake8](https://pypi.org/project/flake8)|0.004|
+|pypi|[tox](https://pypi.org/project/tox)|0.004|
+|pypi|[nose2](https://pypi.org/project/nose2)|0.004|
+|pypi|[Django](https://pypi.org/project/Django)|0.004|
+|pypi|[asdf-transform-schemas](https://github.com/asdf-format/asdf-transform-schemas)|0.004|
+|pypi|[xattr](https://pypi.org/project/xattr)|0.004|
+|pypi|[unicodedata2](https://pypi.org/project/unicodedata2)|0.004|
+|pypi|[munkres](https://pypi.org/project/munkres)|0.004|
+|pypi|[brotli](https://pypi.org/project/brotli)|0.004|
+|pypi|[brotlicffi](https://pypi.org/project/brotlicffi)|0.004|
+|pypi|[skia-pathops](https://pypi.org/project/skia-pathops)|0.004|
+|pypi|[sympy](https://pypi.org/project/sympy)|0.004|
+|pypi|[lz4](https://pypi.org/project/lz4)|0.004|
+|pypi|[zopfli](https://pypi.org/project/zopfli)|0.004|
+|pypi|[lxml](https://pypi.org/project/lxml)|0.004|
+|pypi|[fs](https://pypi.org/project/fs)|0.004|
+|pypi|[asdf-astropy](https://github.com/astropy/asdf-astropy)|0.004|
+|pypi|[sunpy-sphinx-theme](https://pypi.org/project/sunpy-sphinx-theme)|0.003|
+|pypi|[sunpy](https://pypi.org/project/sunpy)|0.003|
+|pypi|[pytest-mpl](https://pypi.org/project/pytest-mpl)|0.003|
+|pypi|[reproject](https://pypi.org/project/reproject)|0.003|
+|pypi|[mpl-animators](https://pypi.org/project/mpl-animators)|0.003|
+|pypi|[codecov](https://pypi.org/project/codecov)|0.003|
+|pypi|[ci-watson](https://pypi.org/project/ci-watson)|0.003|
+|pypi|[stsci-rtd-theme](https://pypi.org/project/stsci-rtd-theme)|0.003|
+|pypi|[pytest-timeout](https://pypi.org/project/pytest-timeout)|0.003|
+|pypi|[pyroma](https://pypi.org/project/pyroma)|0.003|
+|pypi|[markdown2](https://pypi.org/project/markdown2)|0.003|
+|pypi|[defusedxml](https://pypi.org/project/defusedxml)|0.003|
+|pypi|[sphinxext-opengraph](https://pypi.org/project/sphinxext-opengraph)|0.003|
+|pypi|[sphinx-removed-in](https://pypi.org/project/sphinx-removed-in)|0.003|
+|pypi|[sphinx-issues](https://pypi.org/project/sphinx-issues)|0.003|
+|pypi|[sphinx-copybutton](https://pypi.org/project/sphinx-copybutton)|0.003|
+|pypi|[olefile](https://pypi.org/project/olefile)|0.003|
+|pypi|[pyerfa](https://github.com/liberfa/pyerfa)|0.002|
+|pypi|[sgp4](https://github.com/brandon-rhodes/python-sgp4)|0.001|
+|pypi|[skyfield](http://github.com/brandon-rhodes/python-skyfield/)|0.001|
+|pypi|[pytest-xdist](https://github.com/pytest-dev/pytest-xdist)|0.001|
+|pypi|[pytest-astropy-header](https://pypi.org/project/pytest-astropy-header)|0.001|
+|pypi|[Jinja2](https://pypi.org/project/Jinja2)|0.001|
+|pypi|[ipython](https://pypi.org/project/ipython)|0.001|
+|pypi|[bottleneck](https://pypi.org/project/bottleneck)|0.001|
+|pypi|[mpmath](https://pypi.org/project/mpmath)|0.001|
+|pypi|[jplephem](https://pypi.org/project/jplephem)|0.001|
+|pypi|[pytz](https://pypi.org/project/pytz)|0.001|
+|pypi|[sortedcontainers](https://pypi.org/project/sortedcontainers)|0.001|
+|pypi|[pandas](https://pypi.org/project/pandas)|0.001|
+|pypi|[bleach](https://pypi.org/project/bleach)|0.001|
+|pypi|[html5lib](https://pypi.org/project/html5lib)|0.001|
+|pypi|[beautifulsoup4](https://pypi.org/project/beautifulsoup4)|0.001|
+|pypi|[pyarrow](https://pypi.org/project/pyarrow)|0.001|
+|pypi|[h5py](https://pypi.org/project/h5py)|0.001|
+|pypi|[dask](https://pypi.org/project/dask)|0.001|
+|pypi|[certifi](https://pypi.org/project/certifi)|0.001|
+|pypi|[PyYAML](https://pypi.org/project/PyYAML)|0.001|
+
+
+> Note that credit values are rounded and expanded (so shared dependencies are represented as one record) and may not add to 1.0. Rounded values that hit zero are removed.
+
+
+- Generated by [CiteLang](https://github.com/vsoch/citelang)