Create ld2dap package

Notebooks/Node Streaming Benchmark.ipynb

@@ -6,7 +6,16 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "from pathlib import Path"
+    "import sys\n",
+    "from pathlib import Path\n",
+    "import numpy as np\n",
+    "import matplotlib.pyplot as plt\n",
+    "import collections\n",
+    "\n",
+    "ld2dap_path = Path('../')\n",
+    "sys.path.append(str(ld2dap_path.resolve()))\n",
+    "import ld2dap\n",
+    "from ld2dap.core import Filter"
    ]
   },
   {
@@ -15,7 +24,47 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "url = '../Data/test.tiff'"
+    "load = ld2dap.LoadTIFF('../Data/test.tiff')\n",
+    "trsh = ld2dap.Treshold(1e3)\n",
+    "disp = ld2dap.ShowFig(fname=None)"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "disp.input = trsh\n",
+    "trsh.input = load"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "disp.run()"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "load.files"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "A = 'est'\n",
+    "isinstance(A, collections.Iterable)"
    ]
   },
   {

Notebooks/Node Streaming Debug.ipynb

@@ -0,0 +1,31 @@
+{
+ "cells": [
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": []
+  }
+ ],
+ "metadata": {
+  "kernelspec": {
+   "display_name": "Python 3",
+   "language": "python",
+   "name": "python3"
+  },
+  "language_info": {
+   "codemirror_mode": {
+    "name": "ipython",
+    "version": 3
+   },
+   "file_extension": ".py",
+   "mimetype": "text/x-python",
+   "name": "python",
+   "nbconvert_exporter": "python",
+   "pygments_lexer": "ipython3"
+  }
+ },
+ "nbformat": 4,
+ "nbformat_minor": 2
+}

ld2dap/AttributeProfiles.py

@@ -8,7 +8,7 @@
 #
 # TODO details
 
-from core import Filter, Stack
+from .core import Filter, Stack
 
 ## TODO: dep
 import sys

ld2dap/LoadTIFF.py

@@ -8,7 +8,7 @@
 #
 # TODO details
 
-from core import Input, Stack
+from ld2dap.core import Input, Stack
 import numpy as np
 
 ## TODO: dep
@@ -19,7 +19,7 @@ import triskele
 class LoadTIFF(Input):
     def __init__(self, tiffFiles):
         super().__init__(self.__class__.__name__)
-        self.files = tiffFiles
+        self.files = tiffFiles if isinstance(tiffFiles, list) else [tiffFiles]
 
     def _process(self, data, metadata):
         layers = list()

ld2dap/SaveFig.py

@@ -8,7 +8,7 @@
 #
 # TODO details
 
-from core import Output
+from ld2dap.core import Output
 
 import matplotlib.pyplot as plt
 

ld2dap/ShowFig.py

@@ -8,7 +8,7 @@
 #
 # TODO details
 
-from core import Output
+from ld2dap.core import Output
 
 import matplotlib.pyplot as plt
 
@@ -26,6 +26,7 @@ class ShowFig(Output):
         img = f1.imshow(data[:,:,-1])
         plt.colorbar(img)
         if metadata is not None:
-            f1.set_title(metadata[-1].desc)
+            print (metadata[0].desc)
+            f1.set_title(' > '.join(metadata[0].desc[-1]))
         plt.show()
         plt.close(fig)

ld2dap/Treshold.py

@@ -8,7 +8,7 @@
 #
 # TODO details
 
-from core import Filter
+from ld2dap.core import Filter
 
 class Treshold(Filter):
     def __init__(self, treshold, max_value=None):
@@ -21,6 +21,8 @@ class Treshold(Filter):
             self.max_value = data[data < self.treshold].max()
 
         for stack in metadata:
-            stack.desc.append('treshold {}'.format(self.treshold))
+            for d, s in zip(stack.desc, stack.symb):
+                d.append('treshold {}'.format(self.treshold))
+                s.append('T_{{{}}}'.format(self.treshold))
 
         return data * (data < self.treshold) + self.max_value * (data >= self.treshold), metadata

ld2dap/__init__.py

@@ -0,0 +1,15 @@
+#!/usr/bin/python
+# -*- coding: utf-8 -*-
+# \file __init__.py
+# \brief TODO
+# \author Florent Guiotte <florent.guiotte@gmail.com>
+# \version 0.1
+# \date 12 avril 2018
+#
+# TODO details
+
+from .AttributeProfiles import AttributeProfiles
+from .Treshold import Treshold
+from .LoadTIFF import LoadTIFF
+from .SaveFig import SaveFig
+from .ShowFig import ShowFig

test.py

@@ -9,16 +9,13 @@
 # TODO details
 
 #from core import Input, Output, Filter
-from LoadTIFF import LoadTIFF
+from ld2dap import LoadTIFF, SaveFig, Treshold, ShowFig
-from AttributeProfiles import AttributeProfiles as APs
+from ld2dap import AttributeProfiles as APs
-from SaveFig import SaveFig
-from Treshold import Treshold
-from ShowFig import ShowFig
 
 import numpy as np
 
 def main():
-    i = LoadTIFF(['../Data/test.tiff', '../Data/test.tiff'])
+    i = LoadTIFF(['Data/test.tiff', 'Data/test2.tiff'])
     t = Treshold(1e4)
     ap = APs(np.array([100,1e3,1e4]))
     o = SaveFig('test.png')