From 6120421ce4fc49a932d59ad9ae384ba76cc2ec78 Mon Sep 17 00:00:00 2001
From: lext <aleksei.tiulpin@protonmail.ch>
Date: Wed, 8 Aug 2018 13:59:24 +0300
Subject: [PATCH] Readme

---
 .idea/workspace.xml | 90 ++++++++++++++++++++++++++++++++++++++++-----
 README.md           |  1 +
 2 files changed, 81 insertions(+), 10 deletions(-)

diff --git a/.idea/workspace.xml b/.idea/workspace.xml
index 10c64f7..a4d32a5 100644
--- a/.idea/workspace.xml
+++ b/.idea/workspace.xml
@@ -3,7 +3,7 @@
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     <list default="true" id="c98451e6-5f29-4c58-952e-8f28d7c081f7" name="Default" comment="">
       <change beforePath="$PROJECT_DIR$/.idea/workspace.xml" beforeDir="false" afterPath="$PROJECT_DIR$/.idea/workspace.xml" afterDir="false" />
-      <change beforePath="$PROJECT_DIR$/inference_own/predict.py" beforeDir="false" afterPath="$PROJECT_DIR$/inference_own/predict.py" afterDir="false" />
+      <change beforePath="$PROJECT_DIR$/README.md" beforeDir="false" afterPath="$PROJECT_DIR$/README.md" afterDir="false" />
     </list>
     <option name="EXCLUDED_CONVERTED_TO_IGNORED" value="true" />
     <option name="TRACKING_ENABLED" value="true" />
@@ -17,11 +17,32 @@
   </component>
   <component name="FileEditorManager">
     <leaf>
-      <file leaf-file-name="predict.py" pinned="false" current-in-tab="true">
+      <file leaf-file-name="predict.py" pinned="false" current-in-tab="false">
         <entry file="file://$PROJECT_DIR$/inference_own/predict.py">
           <provider selected="true" editor-type-id="text-editor">
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-              <caret line="79" column="60" selection-start-line="79" selection-start-column="60" selection-end-line="79" selection-end-column="60" />
+            <state relative-caret-position="607">
+              <caret line="90" column="44" lean-forward="true" selection-start-line="90" selection-start-column="44" selection-end-line="90" selection-end-column="44" />
+            </state>
+          </provider>
+        </entry>
+      </file>
+      <file leaf-file-name="README.md" pinned="false" current-in-tab="true">
+        <entry file="file://$PROJECT_DIR$/README.md">
+          <provider selected="true" editor-type-id="split-provider[text-editor;markdown-preview-editor]">
+            <state split_layout="SPLIT">
+              <first_editor relative-caret-position="501">
+                <caret line="44" lean-forward="true" selection-start-line="44" selection-end-line="44" />
+              </first_editor>
+              <second_editor />
+            </state>
+          </provider>
+        </entry>
+      </file>
+      <file leaf-file-name="create_conda_env.sh" pinned="false" current-in-tab="false">
+        <entry file="file://$PROJECT_DIR$/create_conda_env.sh">
+          <provider selected="true" editor-type-id="text-editor">
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@@ -91,6 +112,8 @@
       <list>
         <option value="$PROJECT_DIR$/own_codes/dataset.py" />
         <option value="$PROJECT_DIR$/inference_own/predict.py" />
+        <option value="$PROJECT_DIR$/create_conda_env.sh" />
+        <option value="$PROJECT_DIR$/README.md" />
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     </option>
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@@ -121,6 +144,11 @@
               <item name="DeepKnee" type="b2602c69:ProjectViewProjectNode" />
               <item name="DeepKnee" type="462c0819:PsiDirectoryNode" />
             </path>
+            <path>
+              <item name="DeepKnee" type="b2602c69:ProjectViewProjectNode" />
+              <item name="DeepKnee" type="462c0819:PsiDirectoryNode" />
+              <item name="Dataset" type="462c0819:PsiDirectoryNode" />
+            </path>
             <path>
               <item name="DeepKnee" type="b2602c69:ProjectViewProjectNode" />
               <item name="DeepKnee" type="462c0819:PsiDirectoryNode" />
@@ -225,7 +253,21 @@
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       <updated>1533723349354</updated>
     </task>
-    <option name="localTasksCounter" value="2" />
+    <task id="LOCAL-00002" summary="Evaluation script seems to work">
+      <created>1533725197867</created>
+      <option name="number" value="00002" />
+      <option name="presentableId" value="LOCAL-00002" />
+      <option name="project" value="LOCAL" />
+      <updated>1533725197867</updated>
+    </task>
+    <task id="LOCAL-00003" summary="Readme, conda env">
+      <created>1533725908704</created>
+      <option name="number" value="00003" />
+      <option name="presentableId" value="LOCAL-00003" />
+      <option name="project" value="LOCAL" />
+      <updated>1533725908704</updated>
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+    <option name="localTasksCounter" value="4" />
     <servers />
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   <component name="ToolWindowManager">
@@ -235,12 +277,12 @@
       <window_info anchor="bottom" id="TODO" order="6" />
       <window_info anchor="bottom" id="Event Log" side_tool="true" />
       <window_info anchor="bottom" id="Database Changes" show_stripe_button="false" />
-      <window_info active="true" anchor="bottom" id="Run" order="2" visible="true" weight="0.32978722" />
+      <window_info anchor="bottom" id="Run" order="2" visible="true" weight="0.32978722" />
       <window_info anchor="bottom" id="Version Control" />
       <window_info anchor="bottom" id="Python Console" />
       <window_info anchor="bottom" id="Terminal" />
       <window_info anchor="right" id="Remote Host" />
-      <window_info content_ui="combo" id="Project" order="0" visible="true" weight="0.24980143" />
+      <window_info active="true" content_ui="combo" id="Project" order="0" visible="true" weight="0.24980143" />
       <window_info anchor="bottom" id="Docker" show_stripe_button="false" />
       <window_info anchor="right" id="Database" />
       <window_info anchor="right" id="SciView" />
@@ -264,7 +306,9 @@
   </component>
   <component name="VcsManagerConfiguration">
     <MESSAGE value="deleted the garbage" />
-    <option name="LAST_COMMIT_MESSAGE" value="deleted the garbage" />
+    <MESSAGE value="Evaluation script seems to work" />
+    <MESSAGE value="Readme, conda env" />
+    <option name="LAST_COMMIT_MESSAGE" value="Readme, conda env" />
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@@ -333,8 +377,34 @@
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+    <entry file="file://$PROJECT_DIR$/Dataset/crop_rois_your_dataset.py">
+      <provider selected="true" editor-type-id="text-editor">
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+    <entry file="file://$PROJECT_DIR$/create_conda_env.sh">
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+    <entry file="file://$PROJECT_DIR$/README.md">
+      <provider selected="true" editor-type-id="split-provider[text-editor;markdown-preview-editor]">
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+          <second_editor />
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       </provider>
     </entry>
diff --git a/README.md b/README.md
index fda1ecd..abc599e 100644
--- a/README.md
+++ b/README.md
@@ -42,6 +42,7 @@ Our model learns localized radiological findings as we imposed prior anatomical
 
 ## Inference for your own data
 To run the inference on your own DICOM data, do the following:
+
 0. Create a conda environment `deep_knee` using the script `create_conda_env.sh`.
 1. Fetch our repository [KneeLocalizer](https://github.com/MIPT-Oulu/KneeLocalizer) and get 
 the file with bounding boxes, which determine the locations of the knees on the image