params/mirrors cleaning + usable test suite (issues #11 and #10)

Context

This pull request solves:

• issue #11 : "The test suite lasts too long".
• issue #10 : "Several tests still display windows even with "nogui" option".

Modifications

root / fwk

• mpirun.py and run.py have been merged. These files were huge copy/paste of each other. The purpose was to be sure that the workspace folder was created by rank#0 process. Now, run.py checks whether MPI is used or not and does what is expected (automatically).
• wutils used setand grep unix command to display environment variables. This code has been rewritten in order to work also on windows.
• Variables such as OMP_NUM_THREADS or MKL_DYNAMIC are now set to predefined and controlled values if (and only if) they are not previously set by the user. For example OMP_NUM_THREADS is set to 1 if OMP_NUM_THREADS does not appear in the list of environment variables.

fdtd

• The tests named fdtd1d_1c and fdtd1d_1d have been modified in order to:
  • compute something even if --nogui is set.
  • completely hide matplotlib commands when --nogui is set (these tests failed if they were run in a ssh terminal without X display)

mirrors

• Some old files have been put in a new mirrors/attic folder: imported_10x10.py, imported_30x30.py, loop_old.py, loop_old2.py
• Some broken tests have been moved to mirrors/broken: NISP_Leg_cond.py (too old matplotlib), mirrors01.py, mirrors03.py, mirrors_test_battery.py (bad mesh with wrong normals)
• A folder named figs has been created for the scripts producing figures for reports: LSP*.py, numpy_matplotlib*
• mirrors/mirror_ss.py: the only working model for mirror! It has been cleaned. An "nogui" option has been added in the parameter list. Its defaut size has been decreased.
• mirror source code:
  • removal of unneeded header
  • basic code formatting
  • removal of unused code
  • additional comments/doc
• Tests:
  • mirrors02.py has been deleted (same as mirrors/mirror_ss.py and mirrors/tests/test1/simple.py )
  • mirrors/tests/test1/simple.py was moved to mirrors/tests
  • all loop*.py have been reduced in size so that they run in a few seconds.
  • all loop*.py can be run either with GUI or not with the desired result.

Test suite

• The test suite now runs in less than a minute (with 6 cores).
• It has been tested on ubuntu and windows

mirrors/tests/mparams/NISP_Leg_cond.py

@@ -6,10 +6,7 @@ import time
 import os
 import shutil
 import math
-from matplotlib import cm
-import matplotlib.pyplot as plt
-from mpl_toolkits.mplot3d import Axes3D
-
+from fwk.wutils import parseargs
 
 def main():
 
@@ -26,18 +23,20 @@ def main():
         for j in range(0,m2):
             cond[i,j] = (2**d[i])/((2./(2*n[j]+1))**d[i])
 
+    args = parseargs()
+    if not args.nogui:
+        import matplotlib.pyplot as plt
+        fig = plt.figure()
+        ax = fig.gca(projection='3d')
+        ax.view_init(elev=20., azim=-140.)
 
-    fig = plt.figure()
-    ax = fig.gca(projection='3d')
-    ax.view_init(elev=20., azim=-140.)
-
-    ax.scatter(X, Y, cond)
+        ax.scatter(X, Y, cond)
 
-    ax.set_xlabel('d [-]')
-    ax.set_ylabel('n [-]')
-    #ax.set_zscale('log')
-    print cond
-    plt.show()
+        ax.set_xlabel('d [-]')
+        ax.set_ylabel('n [-]')
+        #ax.set_zscale('log')
+        print cond
+        plt.show()
 
 if __name__ == "__main__":
     main()