[med-svn] [Git][med-team/python-pangolearn][upstream] 2 commits: New upstream version 2022-02-02+dfsg

[Andreas Tille (@tille)]

Andreas Tille pushed to branch upstream at Debian Med / python-pangolearn


Commits:
9b98e408 by Andreas Tille at 2022-02-16T20:44:37+01:00
New upstream version 2022-02-02+dfsg
- - - - -
c06fc94b by Andreas Tille at 2022-02-16T20:57:03+01:00
New upstream version 2022-02-02+dfsg
- - - - -


8 changed files:

- pangoLEARN/__init__.py
- + pangoLEARN/data/decisionTree_recall_report.csv
- pangoLEARN/data/decision_tree_rules.zip
- pangoLEARN/data/lineageTree.pb
- pangoLEARN/data/lineages.downsample.csv
- pangoLEARN/data/lineages.hash.csv
- + pangoLEARN/data/randomForest_recall_report.csv
- pangoLEARN/scripts/training_runner.sh


Changes:

=====================================
pangoLEARN/__init__.py
=====================================
@@ -1,3 +1,3 @@
 _program = "pangoLEARN"
-__version__ = "2021-10-18"
-PANGO_VERSION = "v1.2.88"
+__version__ = "2022-02-02"
+PANGO_VERSION = "v1.2.124"


=====================================
pangoLEARN/data/decisionTree_recall_report.csv
=====================================
@@ -0,0 +1,1542 @@
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+Q.7,1.0,0.9987999999999999,0.9994,822
+Q.8,1.0,0.9852000000000001,0.9924,266
+R.1,0.9675,0.9625,0.9591000000000001,72
+S.1,1.0,0.975,0.9856999999999999,41
+U.1,1.0,0.9800000000000001,0.9888999999999999,56
+U.2,1.0,1.0,1.0,21
+U.3,1.0,1.0,1.0,10
+V.1,1.0,0.95,0.9667,27
+V.2,1.0,1.0,1.0,25
+W.1,1.0,1.0,1.0,44
+W.2,1.0,1.0,1.0,51
+W.3,1.0,0.9917,0.9957,118
+W.4,0.998,1.0,0.999,493
+XA,1.0,1.0,1.0,43
+XB,0.9972,1.0,0.9986,715
+XC,1.0,1.0,1.0,17
+Y.1,1.0,0.9667,0.9800000000000001,60
+Z.1,0.9938,0.9875999999999999,0.9904,153
+AM.2,1.0,1.0,1.0,5
+AY.112.1,0.0,0.0,0.0,2
+B.1.1.452,0.6666666666666666,0.6666666666666666,0.6666666666666666,6
+B.1.110.2,0.5,0.6,0.5334,5
+B.1.177.29,1.0,1.0,1.0,8
+B.1.177.64,1.0,1.0,1.0,5
+B.1.203,0.8888888888888888,0.8888888888888888,0.8888888888888888,9
+B.1.316,1.0,1.0,1.0,5
+B.1.342,1.0,1.0,1.0,8
+B.1.476,0.8333333333333334,0.8333333333333334,0.8333333333333334,6
+B.1.596.1,0.875,0.875,0.875,8
+C.29,0.8333333333333334,0.8333333333333334,0.8333333333333334,6
+B.1.1.327,1.0,1.0,1.0,5
+B.1.1.484,0.8333333333333334,0.8333333333333334,0.8333333333333334,6
+B.1.1.516,1.0,1.0,1.0,8
+B.1.350.1,1.0,1.0,1.0,7
+C.10,1.0,1.0,1.0,4
+C.6,0.3333333333333333,0.3333333333333333,0.3333333333333333,3
+N.8,0.8571428571428571,0.8571428571428571,0.8571428571428571,6
+B.1.1.381,0.8571428571428571,0.8571428571428571,0.8571428571428571,7
+R.2,0.3333333333333333,0.3333333333333333,0.3333333333333333,3
+A.12,0.8333333333333334,0.8333333333333334,0.8333333333333334,6
+AH.1,1.0,1.0,1.0,5
+AM.3,1.0,1.0,1.0,6
+B.1.1.444,1.0,1.0,1.0,5
+B.1.1.446,0.9,1.0,0.9334,5
+A.30,1.0,1.0,1.0,4
+B.60,0.0,0.0,0.0,1
+B.1.617,0.0,0.0,0.0,1
+macro avg,0.979090909090909,0.9750909090909091,0.9748181818181817,1115889
+weighted avg,0.9943636363636362,0.9942727272727271,0.9941818181818181,1115889


=====================================
pangoLEARN/scripts/training_runner.sh
=====================================
@@ -20,15 +20,23 @@ fi
 echo "Training model version: $TODAY"
 
 if [ -z "$1" ]
+then
+    UID="s1680070"
+else
+    UID=$1
+fi
+
+if [ -z "$2" ]
 then
     DATA_DATE=$TODAY
 else
-    DATA_DATE=$1
+    DATA_DATE=$2
 fi
+echo "$UID training version $DATA_DATE"
 
 # LATEST_DATA=$(ls -td /localdisk/home/shared/raccoon-dog/2021*_gisaid/publish/gisaid | head -n 1)
 
-REPO_PATH=/localdisk/home/s1362711/repositories
+REPO_PATH=/localdisk/home/$UID/repositories
 
 PANGO_PATH=$REPO_PATH/pango-designation
 PLEARN_PATH=$REPO_PATH/pangoLEARN



View it on GitLab: https://salsa.debian.org/med-team/python-pangolearn/-/compare/fca780e7500c2a9c01f3b7a2b96c58b9298104e1...c06fc94bfdd06645f183d35856e7563a4571f016

-- 
View it on GitLab: https://salsa.debian.org/med-team/python-pangolearn/-/compare/fca780e7500c2a9c01f3b7a2b96c58b9298104e1...c06fc94bfdd06645f183d35856e7563a4571f016
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