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提交 2b22a0b1 作者: 朱学凯
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add z-score module

上级 009437e6
正在显示 包含 104 行增加 和 16 行删除
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.idea/CPI.iml
...@@ -2,7 +2,7 @@ ...@@ -2,7 +2,7 @@
<module type="PYTHON_MODULE" version="4"> <module type="PYTHON_MODULE" version="4">
<component name="NewModuleRootManager"> <component name="NewModuleRootManager">
<content url="file://$MODULE_DIR$" /> <content url="file://$MODULE_DIR$" />
<orderEntry type="jdk" jdkName="Python 3.6 (py3.6)" jdkType="Python SDK" /> <orderEntry type="jdk" jdkName="Python 3.6 (code)" jdkType="Python SDK" />
<orderEntry type="sourceFolder" forTests="false" /> <orderEntry type="sourceFolder" forTests="false" />
</component> </component>
<component name="PyDocumentationSettings"> <component name="PyDocumentationSettings">
......
.idea/misc.xml
<?xml version="1.0" encoding="UTF-8"?> <?xml version="1.0" encoding="UTF-8"?>
<project version="4"> <project version="4">
<component name="ProjectRootManager" version="2" project-jdk-name="Python 3.6 (py3.6)" project-jdk-type="Python SDK" /> <component name="ProjectRootManager" version="2" project-jdk-name="Python 3.6 (code)" project-jdk-type="Python SDK" />
</project> </project>
\ No newline at end of file
.idea/shelf/Uncommitted_changes_before_Update_at_2021_4_29,_1_41_下午_[Default_Changelist]/shelved.patch 0 → 100644
Index: .idea/shelf/Uncommitted_changes_before_Update_at_2021_4_16__11_22___Default_Changelist_.xml
Index: .idea/shelf/Uncommitted_changes_before_Update_at_2021_4_16__11_22___Default_Changelist_.xml
===================================================================
diff --git a/.idea/shelf/Uncommitted_changes_before_Update_at_2021_4_16__11_22___Default_Changelist_.xml b/.idea/shelf/Uncommitted_changes_before_Update_at_2021_4_16__11_22___Default_Changelist_.xml
deleted file mode 100644
--- a/.idea/shelf/Uncommitted_changes_before_Update_at_2021_4_16__11_22___Default_Changelist_.xml (revision a43ff66ca17fa5aa99e18028f5990e68a6469c5b)
+++ /dev/null (revision a43ff66ca17fa5aa99e18028f5990e68a6469c5b)
@@ -1,4 +0,0 @@
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- <option name="DESCRIPTION" value="Uncommitted changes before Update at 2021/4/16, 11:22 上午 [Default Changelist]" />
-</changelist>
\ No newline at end of file
Index: .idea/shelf/Uncommitted_changes_before_Update_at_2021_4_16,_11_22_上午_[Default_Changelist]/shelved.patch
===================================================================
diff --git a/.idea/shelf/Uncommitted_changes_before_Update_at_2021_4_16,_11_22_上午_[Default_Changelist]/shelved.patch b/.idea/shelf/Uncommitted_changes_before_Update_at_2021_4_16,_11_22_上午_[Default_Changelist]/shelved.patch
deleted file mode 100644
--- a/.idea/shelf/Uncommitted_changes_before_Update_at_2021_4_16,_11_22_上午_[Default_Changelist]/shelved.patch (revision a43ff66ca17fa5aa99e18028f5990e68a6469c5b)
+++ /dev/null (revision a43ff66ca17fa5aa99e18028f5990e68a6469c5b)
@@ -1,20 +0,0 @@
-Index: .idea/workspace.xml
-IDEA additional info:
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-Subsystem: com.intellij.openapi.diff.impl.patch.CharsetEP
-<+>UTF-8
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-diff --git a/.idea/workspace.xml b/.idea/workspace.xml
---- a/.idea/workspace.xml (revision 9ad087cc206a1aaa224fb400aceeebf955c664e1)
-+++ b/.idea/workspace.xml (date 1618543228916)
-@@ -3,9 +3,6 @@
- <component name="ChangeListManager">
- <list default="true" id="f877ac68-9cea-46d8-9125-207eebe5b5d6" name="Default Changelist" comment="">
- <change beforePath="$PROJECT_DIR$/.idea/workspace.xml" beforeDir="false" afterPath="$PROJECT_DIR$/.idea/workspace.xml" afterDir="false" />
-- <change beforePath="$PROJECT_DIR$/eval.py" beforeDir="false" afterPath="$PROJECT_DIR$/eval.py" afterDir="false" />
-- <change beforePath="$PROJECT_DIR$/experment_result/loss.png" beforeDir="false" afterPath="$PROJECT_DIR$/experment_result/learning_rate/loss.png" afterDir="false" />
-- <change beforePath="$PROJECT_DIR$/experment_result/loss.svg" beforeDir="false" />
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- <option name="HIGHLIGHT_CONFLICTS" value="true" />
Index: .idea/workspace.xml
IDEA additional info:
Subsystem: com.intellij.openapi.diff.impl.patch.BaseRevisionTextPatchEP
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Subsystem: com.intellij.openapi.diff.impl.patch.CharsetEP
<+>UTF-8
===================================================================
diff --git a/.idea/workspace.xml b/.idea/workspace.xml
--- a/.idea/workspace.xml (revision a43ff66ca17fa5aa99e18028f5990e68a6469c5b)
+++ b/.idea/workspace.xml (date 1619674875599)
@@ -2,9 +2,8 @@
<project version="4">
<component name="ChangeListManager">
<list default="true" id="f877ac68-9cea-46d8-9125-207eebe5b5d6" name="Default Changelist" comment="">
- <change beforePath="$PROJECT_DIR$/.gitignore" beforeDir="false" afterPath="$PROJECT_DIR$/.gitignore" afterDir="false" />
+ <change beforePath="$PROJECT_DIR$/.idea/shelf/Uncommitted_changes_before_Update_at_2021_4_16,_11_22_上午_[Default_Changelist]/shelved.patch" beforeDir="false" />
<change beforePath="$PROJECT_DIR$/.idea/workspace.xml" beforeDir="false" afterPath="$PROJECT_DIR$/.idea/workspace.xml" afterDir="false" />
- <change beforePath="$PROJECT_DIR$/run_interaction.py" beforeDir="false" afterPath="$PROJECT_DIR$/run_interaction.py" afterDir="false" />
</list>
<option name="SHOW_DIALOG" value="false" />
<option name="HIGHLIGHT_CONFLICTS" value="true" />
@@ -175,21 +174,10 @@
</map>
</option>
</component>
- <component name="XDebuggerManager">
- <breakpoint-manager>
- <breakpoints>
- <line-breakpoint enabled="true" suspend="THREAD" type="python-line">
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- <line>36</line>
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- </line-breakpoint>
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- </breakpoint-manager>
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<component name="com.intellij.coverage.CoverageDataManagerImpl">
<SUITE FILE_PATH="coverage/CPI$dataset.coverage" NAME="dataset Coverage Results" MODIFIED="1618641059668" SOURCE_PROVIDER="com.intellij.coverage.DefaultCoverageFileProvider" RUNNER="coverage.py" COVERAGE_BY_TEST_ENABLED="true" COVERAGE_TRACING_ENABLED="false" WORKING_DIRECTORY="$PROJECT_DIR$" />
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- <SUITE FILE_PATH="coverage/CPI$run_interaction.coverage" NAME="run_interaction Coverage Results" MODIFIED="1618917155441" SOURCE_PROVIDER="com.intellij.coverage.DefaultCoverageFileProvider" RUNNER="coverage.py" COVERAGE_BY_TEST_ENABLED="true" COVERAGE_TRACING_ENABLED="false" WORKING_DIRECTORY="$PROJECT_DIR$" />
+ <SUITE FILE_PATH="coverage/CPI$run_interaction.coverage" NAME="run_interaction Coverage Results" MODIFIED="1619081693342" SOURCE_PROVIDER="com.intellij.coverage.DefaultCoverageFileProvider" RUNNER="coverage.py" COVERAGE_BY_TEST_ENABLED="true" COVERAGE_TRACING_ENABLED="false" WORKING_DIRECTORY="$PROJECT_DIR$" />
</component>
</project>
\ No newline at end of file
.idea/shelf/Uncommitted_changes_before_Update_at_2021_4_29__1_41___Default_Changelist_.xml 0 → 100644
<changelist name="Uncommitted_changes_before_Update_at_2021_4_29,_1_41_下午_[Default_Changelist]" date="1619674906341" recycled="true" deleted="true">
<option name="PATH" value="$PROJECT_DIR$/.idea/shelf/Uncommitted_changes_before_Update_at_2021_4_29,_1_41_下午_[Default_Changelist]/shelved.patch" />
<option name="DESCRIPTION" value="Uncommitted changes before Update at 2021/4/29, 1:41 下午 [Default Changelist]" />
</changelist>
\ No newline at end of file
.idea/workspace.xml
...@@ -4,9 +4,8 @@ ...@@ -4,9 +4,8 @@
<list default="true" id="f877ac68-9cea-46d8-9125-207eebe5b5d6" name="Default Changelist" comment=""> <list default="true" id="f877ac68-9cea-46d8-9125-207eebe5b5d6" name="Default Changelist" comment="">
<change beforePath="$PROJECT_DIR$/.idea/CPI.iml" beforeDir="false" afterPath="$PROJECT_DIR$/.idea/CPI.iml" afterDir="false" /> <change beforePath="$PROJECT_DIR$/.idea/CPI.iml" beforeDir="false" afterPath="$PROJECT_DIR$/.idea/CPI.iml" afterDir="false" />
<change beforePath="$PROJECT_DIR$/.idea/misc.xml" beforeDir="false" afterPath="$PROJECT_DIR$/.idea/misc.xml" afterDir="false" /> <change beforePath="$PROJECT_DIR$/.idea/misc.xml" beforeDir="false" afterPath="$PROJECT_DIR$/.idea/misc.xml" afterDir="false" />
<change beforePath="$PROJECT_DIR$/.idea/shelf/Uncommitted_changes_before_Update_at_2021_4_16,_11_22_上午_[Default_Changelist]/shelved.patch" beforeDir="false" />
<change beforePath="$PROJECT_DIR$/.idea/shelf/Uncommitted_changes_before_Update_at_2021_4_16__11_22___Default_Changelist_.xml" beforeDir="false" />
<change beforePath="$PROJECT_DIR$/.idea/workspace.xml" beforeDir="false" afterPath="$PROJECT_DIR$/.idea/workspace.xml" afterDir="false" /> <change beforePath="$PROJECT_DIR$/.idea/workspace.xml" beforeDir="false" afterPath="$PROJECT_DIR$/.idea/workspace.xml" afterDir="false" />
<change beforePath="$PROJECT_DIR$/utils/normalize_data.py" beforeDir="false" afterPath="$PROJECT_DIR$/utils/normalize_data.py" afterDir="false" />
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<option name="SHOW_DIALOG" value="false" /> <option name="SHOW_DIALOG" value="false" />
<option name="HIGHLIGHT_CONFLICTS" value="true" /> <option name="HIGHLIGHT_CONFLICTS" value="true" />
...@@ -229,19 +228,14 @@ ...@@ -229,19 +228,14 @@
<line>36</line> <line>36</line>
<option name="timeStamp" value="21" /> <option name="timeStamp" value="21" />
</line-breakpoint> </line-breakpoint>
<line-breakpoint enabled="true" suspend="THREAD" type="python-line">
<url>file://$PROJECT_DIR$/utils/normalize_data.py</url>
<line>10</line>
<option name="timeStamp" value="22" />
</line-breakpoint>
</breakpoints> </breakpoints>
</breakpoint-manager> </breakpoint-manager>
</component> </component>
<component name="com.intellij.coverage.CoverageDataManagerImpl"> <component name="com.intellij.coverage.CoverageDataManagerImpl">
<SUITE FILE_PATH="coverage/CPI$dataset.coverage" NAME="dataset Coverage Results" MODIFIED="1618641059668" SOURCE_PROVIDER="com.intellij.coverage.DefaultCoverageFileProvider" RUNNER="coverage.py" COVERAGE_BY_TEST_ENABLED="true" COVERAGE_TRACING_ENABLED="false" WORKING_DIRECTORY="$PROJECT_DIR$" />
<SUITE FILE_PATH="coverage/CPI$test.coverage" NAME="test Coverage Results" MODIFIED="1618643206375" SOURCE_PROVIDER="com.intellij.coverage.DefaultCoverageFileProvider" RUNNER="coverage.py" COVERAGE_BY_TEST_ENABLED="true" COVERAGE_TRACING_ENABLED="false" WORKING_DIRECTORY="$PROJECT_DIR$" /> <SUITE FILE_PATH="coverage/CPI$test.coverage" NAME="test Coverage Results" MODIFIED="1618643206375" SOURCE_PROVIDER="com.intellij.coverage.DefaultCoverageFileProvider" RUNNER="coverage.py" COVERAGE_BY_TEST_ENABLED="true" COVERAGE_TRACING_ENABLED="false" WORKING_DIRECTORY="$PROJECT_DIR$" />
<SUITE FILE_PATH="coverage/CPI$normalize_data.coverage" NAME="normalize_data Coverage Results" MODIFIED="1619667621484" SOURCE_PROVIDER="com.intellij.coverage.DefaultCoverageFileProvider" RUNNER="coverage.py" COVERAGE_BY_TEST_ENABLED="true" COVERAGE_TRACING_ENABLED="false" WORKING_DIRECTORY="$PROJECT_DIR$/utils" /> <SUITE FILE_PATH="coverage/CPI$normalize_data.coverage" NAME="normalize_data Coverage Results" MODIFIED="1619675786375" SOURCE_PROVIDER="com.intellij.coverage.DefaultCoverageFileProvider" RUNNER="coverage.py" COVERAGE_BY_TEST_ENABLED="true" COVERAGE_TRACING_ENABLED="false" WORKING_DIRECTORY="$PROJECT_DIR$/utils" />
<SUITE FILE_PATH="coverage/CPI$run_interaction.coverage" NAME="run_interaction Coverage Results" MODIFIED="1618917155441" SOURCE_PROVIDER="com.intellij.coverage.DefaultCoverageFileProvider" RUNNER="coverage.py" COVERAGE_BY_TEST_ENABLED="true" COVERAGE_TRACING_ENABLED="false" WORKING_DIRECTORY="$PROJECT_DIR$" />
<SUITE FILE_PATH="coverage/CPI$eval.coverage" NAME="eval Coverage Results" MODIFIED="1618396849549" SOURCE_PROVIDER="com.intellij.coverage.DefaultCoverageFileProvider" RUNNER="coverage.py" COVERAGE_BY_TEST_ENABLED="true" COVERAGE_TRACING_ENABLED="false" WORKING_DIRECTORY="$PROJECT_DIR$" /> <SUITE FILE_PATH="coverage/CPI$eval.coverage" NAME="eval Coverage Results" MODIFIED="1618396849549" SOURCE_PROVIDER="com.intellij.coverage.DefaultCoverageFileProvider" RUNNER="coverage.py" COVERAGE_BY_TEST_ENABLED="true" COVERAGE_TRACING_ENABLED="false" WORKING_DIRECTORY="$PROJECT_DIR$" />
<SUITE FILE_PATH="coverage/CPI$dataset.coverage" NAME="dataset Coverage Results" MODIFIED="1618641059668" SOURCE_PROVIDER="com.intellij.coverage.DefaultCoverageFileProvider" RUNNER="coverage.py" COVERAGE_BY_TEST_ENABLED="true" COVERAGE_TRACING_ENABLED="false" WORKING_DIRECTORY="$PROJECT_DIR$" /> <SUITE FILE_PATH="coverage/CPI$run_interaction.coverage" NAME="run_interaction Coverage Results" MODIFIED="1619081693342" SOURCE_PROVIDER="com.intellij.coverage.DefaultCoverageFileProvider" RUNNER="coverage.py" COVERAGE_BY_TEST_ENABLED="true" COVERAGE_TRACING_ENABLED="false" WORKING_DIRECTORY="$PROJECT_DIR$" />
</component> </component>
</project> </project>
\ No newline at end of file
data/test_z_ic50 0 → 100644
This source diff could not be displayed because it is too large. You can view the blob instead.
utils/normalize_data.py
import numpy as np import numpy as np
def z_score(data, save): def z_score(data, save, enlarge):
with open(data, 'r') as f: with open(data, 'r') as f:
lines = f.readlines() lines = f.readlines()
data = [] data = []
for line in lines: for line in lines:
aff = np.float64(line.strip()) aff = np.float64(line.strip())
data.append(aff) data.append(aff)
data = np.array(lines) data = np.array(data)
ave = np.mean(data) ave = np.mean(data)
std = np.std(data) std = np.std(data)
new_affinity = (data - ave) / std new_affinity = (data - ave) / std
new_affinity *= enlarge
new_affinity = list(new_affinity) new_affinity = list(new_affinity)
with open(save, 'w') as f: with open(save, 'w') as f:
for aff in new_affinity: for aff in new_affinity:
...@@ -23,4 +24,5 @@ def z_score(data, save): ...@@ -23,4 +24,5 @@ def z_score(data, save):
if __name__ == '__main__': if __name__ == '__main__':
data = '../data/test_ic50' data = '../data/test_ic50'
save = '../data/test_z_ic50' save = '../data/test_z_ic50'
z_score(data, save) enlarge = 100
\ No newline at end of file z_score(data, save, enlarge)
\ No newline at end of file
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