Mailman 3 June 2012 - scikit-image

io.imsave() problems with passing arguments to plugin "freeimage"
by Sigmund July 12, 2012

July 12, 2012

Hallo! To read uncompressed TIFF files I use the freeimage plugin. The reading works great but since last week I need to save a summed Image. I used the io.imsave() with the freeimage plugin but by default it writs a compressed TIFF file. The freeimage documentation provides Flags to use for different compressions or for a non compressed type (TIFF_NONE). Can someone tell me how to pass theses Flags to the plugin? I saw that Christophs 'tifffile' plugin does the job but still I would like to know how to use the freeimage plug-n for it. Thanks! Siggi

3 13

ANN: scikits-image v0.6 release
by Stéfan van der Walt June 24, 2012

June 24, 2012

Announcement: scikits-image 0.6 =============================== We're happy to announce the 6th version of scikits-image! Scikits-image is an image processing toolbox for SciPy that includes algorithms for segmentation, geometric transformations, color space manipulation, analysis, filtering, morphology, feature detection, and more. For more information, examples, and documentation, please visit our website http://skimage.org New Features ------------ - Packaged in Debian as ``python-skimage`` - Template matching - Fast user-defined image warping - Adaptive thresholding - Structural similarity index - Polygon, circle and ellipse drawing - Peak detection - Region properties - TiffFile I/O plugin ... along with some bug fixes and performance tweaks. Contributors to this release ---------------------------- - Vincent Albufera - David Cournapeau - Christoph Gohlke - Emmanuelle Gouillart - Pieter Holtzhausen - Zachary Pincus - Johannes Schönberger - Tom (tangofoxtrotmike) - James Turner - Stefan van der Walt - Tony S Yu

1 0

Final sprint to 0.6, Sunday 1600 GMT-7
by Stéfan van der Walt June 23, 2012

June 23, 2012

Hi everyone, Tony and I will be sprinting tomorrow at 16:00 Pacific Time to round up the 0.6 release. Anyone who wants to pitch in is most welcome; just mail me if you're around, and we can get together on Skype or irc. Stéfan

1 0

Re: Help to debug FreeImage on SPARC
by Zachary Pincus June 19, 2012

June 19, 2012

Oh, ugh, wow. That's unexpected. What's the context / where is the segfault? Perhaps I can help by looking at the offending code. Zach On Jun 18, 2012, at 5:18 PM, Stéfan van der Walt wrote: > Hi, all > > The 0.6 release is lagging behind, since I'm struggling to debug a > segfault that occurs when loading uint16 images via FreeImage on a > SPARC. Is there anyone with experience on this platform, or who would > like to help debug the issue? > > Thanks in advance, > Stéfan

2 1

Help to debug FreeImage on SPARC
by Stéfan van der Walt June 18, 2012

June 18, 2012

Hi, all The 0.6 release is lagging behind, since I'm struggling to debug a segfault that occurs when loading uint16 images via FreeImage on a SPARC. Is there anyone with experience on this platform, or who would like to help debug the issue? Thanks in advance, Stéfan

1 0

Segmentation algorithms
by Andreas Mueller June 18, 2012

June 18, 2012

Hi everybody. I was wondering whether you are interested in having more image segmentation algorithms in skimage. As far as I can see, there is mainly watershed there at the moment. I'd like to implement mean shift, quick shift, Felsenzwalb's graph based method and a k-means based method. Some of these are particularly interesting for super pixel creation. Also: is there a strong desire do support both 2d and 3d images? (or even n-d?) I haven't been following the project to closely recently. Cheers, Andy

7 12

Re: PEP8
by Andreas Mueller June 16, 2012

June 16, 2012

Hi Jaidev. To answer both of your questions: I was refering to code in scikit-image and the policy / opinions of scikit-image devs about these issues. Cheers, Andy On 06/16/2012 10:57 AM, Jaidev Deshpande wrote: > Hi, > >> Should new code adhere to pep8? > When you say new code, are you referring to all new code in general, > or some specific package? And out of curiosity, why is this message on > the scikit-image mailing list? > > Thanks

1 0

Re: Segmentation algorithms
by Andreas Mueller June 15, 2012

June 15, 2012

Hi Stefan. In the near future I also want to implement Boykov-Kolmogorov and graph cuts. I think it would be nice to to GrabCut with sklearn+skimage. Let's see how this goes. Cheers, Andy Btw: I also like n**2 better but then my editor complains ;) On 06/15/2012 08:47 PM, StÃ¯Â¿Â½fan van der Walt wrote: > Hi Andreas > > On Fri, Jun 15, 2012 at 7:29 AM, Andreas Mueller > <amueller(a)ais.uni-bonn.de> wrote: >> I was wondering whether you are interested in having more image segmentation >> algorithms in skimage. > I am also very interested in matting algorithms and graph cuts, e.g.: > > http://www.inf.ufrgs.br/~eslgastal/SharedMatting/ > > StÃ¯Â¿Â½fan

1 0

calibration
by Dada Khalandhar June 12, 2012

June 12, 2012

I am doing project on video tracking. In that I need to find the feature points each frame and estimate the 3D coordinates of each point. Can somebody explain me how to go about this

1 0

SciPy2012 conference: Last week for early birds, poster submissions
by Stéfan van der Walt June 12, 2012

June 12, 2012

Hi everyone We're rapidly approaching SciPy2012 <http://conference.scipy.org/scipy2012>, which takes place in Austin, Texas from July 16th to 21st. This is a reminder that the *discounted early bird registration* closes on the 18th of this month. Also, we decided to keep the queue for *poster submissions* open until all slots are filled. So, whether you have a neat side project, a lightning talk gone rogue, or simply want to get the community talking about your latest and greatest idea--send in a poster abstract to 2012submissions(a)scipy.org. See you in Austin! Stéfan

1 0

Re: Installing dev6.0 on windows with enthought python
by Dirk Colbry June 12, 2012

June 12, 2012

That worked great!! Thanks for all of your help and quick response. - Dirk On Tue, Jun 12, 2012 at 4:56 PM, Stéfan van der Walt <stefan(a)sun.ac.za> wrote: > On Tue, Jun 12, 2012 at 12:25 PM, Dirk Colbry <dirkcolbry(a)gmail.com> wrote: >> I copied the file as you suggested however, it didn't seem to change >> anything, I get the same errors. Any other suggestions? Is there an >> existing email thread or google search that you suggest that may point me in >> the right direction? > > Chris just made a fix which should allow you to build successfully; > please try the latest Git version. > > Stéfan

1 0

Re: Installing dev6.0 on windows with enthought python
by Stéfan van der Walt June 12, 2012

June 12, 2012

On Tue, Jun 12, 2012 at 12:25 PM, Dirk Colbry <dirkcolbry(a)gmail.com> wrote: > I copied the file as you suggested however, it didn't seem to change > anything, I get the same errors. Any other suggestions? Is there an > existing email thread or google search that you suggest that may point me in > the right direction? Chris just made a fix which should allow you to build successfully; please try the latest Git version. Stéfan

1 0

Re: Installing dev6.0 on windows with enthought python
by Christoph Gohlke June 12, 2012

June 12, 2012

On 6/12/2012 12:25 PM, Dirk Colbry wrote: > > > On Monday, June 11, 2012 5:53:16 PM UTC-4, Christoph Gohlke wrote: > > On 6/11/2012 12:32 PM, Dirk Colbry wrote: > > I am struggling compiling the development version of > scikits-image in > > Windows with Enthought Python (version 27). I need the latest > version > > because our research team would like to try out the template > matching > > examples. I started by using easy_install but that just > provides for > > me the latest stable version 0.5 (not surprising). I then tried > tried > > downloading the source as described on the website. > > > > git clone http://github.com/scikits-image/scikits-image.git > <http://github.com/scikits-image/scikits-image.git> > > cd scikits-image/ > > python setup.py install > > > > The above worked fine on my Mac. However, when I tried the same > > command on a couple of different windows7 machines everything works > > until I run the python setup.py install command. It looks like > it is > > working but then it stops with the following: > > > > python setup.py install > > ... > > compile options: > '-IC:\Python27\lib\site-packages\numpy\core\include -IC:\Python > > 27\lib\site-packages\numpy\core\include -IC:\Python27\include > -IC:\Python27\PC - > > c' > > gcc -g -DDEBUG -DMS_WIN64 -O0 -Wall -Wstrict-prototypes > -IC:\Python27\lib\site-p > > ackages\numpy\core\include > -IC:\Python27\lib\site-packages\numpy\core\include -I > > C:\Python27\include -IC:\Python27\PC -c _spath.c -o > build\temp.win-amd64-2.7\Rel > > ease\_spath.o > > Found executable C:\Python27\Scripts\gcc.exe > > gcc.exe: _spath.c: No such file or directory > > gcc.exe: no input files > > error: Command "gcc -g -DDEBUG -DMS_WIN64 -O0 -Wall > -Wstrict-prototypes -IC:\Pyt > > hon27\lib\site-packages\numpy\core\include > -IC:\Python27\lib\site-packages\numpy > > \core\include -IC:\Python27\include -IC:\Python27\PC -c _spath.c > -o build\temp.w > > in-amd64-2.7\Release\_spath.o" failed with exit status 1 > > > > > > I have the latest version of enthought python installed on all > of the > > machines. I did some searching for _spath.c and scikits-image. > There > > where a few posts but I could not find anything related to > version 6.0 > > of scikits-image. The following are a few links I found that > looked > > promising: > > > > https://github.com/stefanv/scikits.image/issues/23 > <https://github.com/stefanv/scikits.image/issues/23> > > > http://blog.philippklaus.de/2011/08/handle-16bit-tiff-images-in-python/ > <http://blog.philippklaus.de/2011/08/handle-16bit-tiff-images-in-python/> > > > > > However, none of the links I found tell me what the problem is > and how > > to fix it. The first link above, seems to indicate that the > problem > > is in Cython but I am not sure how to tell if Cython is working > (and I > > am not convinced that this is the problem). The person writing > in on > > the second link seems to have a solution but I can't figure out > what > > the solution is or how to reproduce it. Anyone have any > suggestions > > on what we can try? > > > > Thanks, > > > > - Dirk > > > > > > EPD is missing a cython.py file in the Scripts folder. Try to > manually > copy the file from > <https://github.com/cython/cython/blob/0.16/cython.py > <https://github.com/cython/cython/blob/0.16/cython.py>> to the > C:\Python27\Scripts folder. > > Christoph > > > Thanks Christoph, > > I copied the file as you suggested however, it didn't seem to change > anything, I get the same errors. Any other suggestions? Is there an > existing email thread or google search that you suggest that may point > me in the right direction? > > Thanks again, > > - Dirk I opened a pull request at <https://github.com/scikits-image/scikits-image/pull/202>. Does that work for you using a clean git clone? Christoph

1 0

Re: Installing dev6.0 on windows with enthought python
by Christoph Gohlke June 12, 2012

June 12, 2012

On 6/12/2012 12:25 PM, Dirk Colbry wrote: > > > On Monday, June 11, 2012 5:53:16 PM UTC-4, Christoph Gohlke wrote: > > On 6/11/2012 12:32 PM, Dirk Colbry wrote: > > I am struggling compiling the development version of > scikits-image in > > Windows with Enthought Python (version 27). I need the latest > version > > because our research team would like to try out the template > matching > > examples. I started by using easy_install but that just > provides for > > me the latest stable version 0.5 (not surprising). I then tried > tried > > downloading the source as described on the website. > > > > git clone http://github.com/scikits-image/scikits-image.git > <http://github.com/scikits-image/scikits-image.git> > > cd scikits-image/ > > python setup.py install > > > > The above worked fine on my Mac. However, when I tried the same > > command on a couple of different windows7 machines everything works > > until I run the python setup.py install command. It looks like > it is > > working but then it stops with the following: > > > > python setup.py install > > ... > > compile options: > '-IC:\Python27\lib\site-packages\numpy\core\include -IC:\Python > > 27\lib\site-packages\numpy\core\include -IC:\Python27\include > -IC:\Python27\PC - > > c' > > gcc -g -DDEBUG -DMS_WIN64 -O0 -Wall -Wstrict-prototypes > -IC:\Python27\lib\site-p > > ackages\numpy\core\include > -IC:\Python27\lib\site-packages\numpy\core\include -I > > C:\Python27\include -IC:\Python27\PC -c _spath.c -o > build\temp.win-amd64-2.7\Rel > > ease\_spath.o > > Found executable C:\Python27\Scripts\gcc.exe > > gcc.exe: _spath.c: No such file or directory > > gcc.exe: no input files > > error: Command "gcc -g -DDEBUG -DMS_WIN64 -O0 -Wall > -Wstrict-prototypes -IC:\Pyt > > hon27\lib\site-packages\numpy\core\include > -IC:\Python27\lib\site-packages\numpy > > \core\include -IC:\Python27\include -IC:\Python27\PC -c _spath.c > -o build\temp.w > > in-amd64-2.7\Release\_spath.o" failed with exit status 1 > > > > > > I have the latest version of enthought python installed on all > of the > > machines. I did some searching for _spath.c and scikits-image. > There > > where a few posts but I could not find anything related to > version 6.0 > > of scikits-image. The following are a few links I found that > looked > > promising: > > > > https://github.com/stefanv/scikits.image/issues/23 > <https://github.com/stefanv/scikits.image/issues/23> > > > http://blog.philippklaus.de/2011/08/handle-16bit-tiff-images-in-python/ > <http://blog.philippklaus.de/2011/08/handle-16bit-tiff-images-in-python/> > > > > > However, none of the links I found tell me what the problem is > and how > > to fix it. The first link above, seems to indicate that the > problem > > is in Cython but I am not sure how to tell if Cython is working > (and I > > am not convinced that this is the problem). The person writing > in on > > the second link seems to have a solution but I can't figure out > what > > the solution is or how to reproduce it. Anyone have any > suggestions > > on what we can try? > > > > Thanks, > > > > - Dirk > > > > > > EPD is missing a cython.py file in the Scripts folder. Try to > manually > copy the file from > <https://github.com/cython/cython/blob/0.16/cython.py > <https://github.com/cython/cython/blob/0.16/cython.py>> to the > C:\Python27\Scripts folder. > > Christoph > > > Thanks Christoph, > > I copied the file as you suggested however, it didn't seem to change > anything, I get the same errors. Any other suggestions? Is there an > existing email thread or google search that you suggest that may point > me in the right direction? > > Thanks again, > > - Dirk Works for me. Make sure to use a clean source directory after a failed build: either check out a new clone with git or remove the "build" directory and all *.md5 files in the skimage source directories. Christoph

1 0

Re: Installing dev6.0 on windows with enthought python
by Christoph Gohlke June 11, 2012

June 11, 2012

On 6/11/2012 12:32 PM, Dirk Colbry wrote: > I am struggling compiling the development version of scikits-image in > Windows with Enthought Python (version 27). I need the latest version > because our research team would like to try out the template matching > examples. I started by using easy_install but that just provides for > me the latest stable version 0.5 (not surprising). I then tried tried > downloading the source as described on the website. > > git clone http://github.com/scikits-image/scikits-image.git > cd scikits-image/ > python setup.py install > > The above worked fine on my Mac. However, when I tried the same > command on a couple of different windows7 machines everything works > until I run the python setup.py install command. It looks like it is > working but then it stops with the following: > > python setup.py install > ... > compile options: '-IC:\Python27\lib\site-packages\numpy\core\include -IC:\Python > 27\lib\site-packages\numpy\core\include -IC:\Python27\include -IC:\Python27\PC - > c' > gcc -g -DDEBUG -DMS_WIN64 -O0 -Wall -Wstrict-prototypes -IC:\Python27\lib\site-p > ackages\numpy\core\include -IC:\Python27\lib\site-packages\numpy\core\include -I > C:\Python27\include -IC:\Python27\PC -c _spath.c -o build\temp.win-amd64-2.7\Rel > ease\_spath.o > Found executable C:\Python27\Scripts\gcc.exe > gcc.exe: _spath.c: No such file or directory > gcc.exe: no input files > error: Command "gcc -g -DDEBUG -DMS_WIN64 -O0 -Wall -Wstrict-prototypes -IC:\Pyt > hon27\lib\site-packages\numpy\core\include -IC:\Python27\lib\site-packages\numpy > \core\include -IC:\Python27\include -IC:\Python27\PC -c _spath.c -o build\temp.w > in-amd64-2.7\Release\_spath.o" failed with exit status 1 > > > I have the latest version of enthought python installed on all of the > machines. I did some searching for _spath.c and scikits-image. There > where a few posts but I could not find anything related to version 6.0 > of scikits-image. The following are a few links I found that looked > promising: > > https://github.com/stefanv/scikits.image/issues/23 > http://blog.philippklaus.de/2011/08/handle-16bit-tiff-images-in-python/ > > However, none of the links I found tell me what the problem is and how > to fix it. The first link above, seems to indicate that the problem > is in Cython but I am not sure how to tell if Cython is working (and I > am not convinced that this is the problem). The person writing in on > the second link seems to have a solution but I can't figure out what > the solution is or how to reproduce it. Anyone have any suggestions > on what we can try? > > Thanks, > > - Dirk > > EPD is missing a cython.py file in the Scripts folder. Try to manually copy the file from <https://github.com/cython/cython/blob/0.16/cython.py> to the C:\Python27\Scripts folder. Christoph

1 0

Installing dev6.0 on windows with enthought python
by Dirk Colbry June 11, 2012

June 11, 2012

I am struggling compiling the development version of scikits-image in Windows with Enthought Python (version 27). I need the latest version because our research team would like to try out the template matching examples. I started by using easy_install but that just provides for me the latest stable version 0.5 (not surprising). I then tried tried downloading the source as described on the website. git clone http://github.com/scikits-image/scikits-image.git cd scikits-image/ python setup.py install The above worked fine on my Mac. However, when I tried the same command on a couple of different windows7 machines everything works until I run the python setup.py install command. It looks like it is working but then it stops with the following: python setup.py install ... compile options: '-IC:\Python27\lib\site-packages\numpy\core\include -IC:\Python 27\lib\site-packages\numpy\core\include -IC:\Python27\include -IC:\Python27\PC - c' gcc -g -DDEBUG -DMS_WIN64 -O0 -Wall -Wstrict-prototypes -IC:\Python27\lib\site-p ackages\numpy\core\include -IC:\Python27\lib\site-packages\numpy\core\include -I C:\Python27\include -IC:\Python27\PC -c _spath.c -o build\temp.win-amd64-2.7\Rel ease\_spath.o Found executable C:\Python27\Scripts\gcc.exe gcc.exe: _spath.c: No such file or directory gcc.exe: no input files error: Command "gcc -g -DDEBUG -DMS_WIN64 -O0 -Wall -Wstrict-prototypes -IC:\Pyt hon27\lib\site-packages\numpy\core\include -IC:\Python27\lib\site-packages\numpy \core\include -IC:\Python27\include -IC:\Python27\PC -c _spath.c -o build\temp.w in-amd64-2.7\Release\_spath.o" failed with exit status 1 I have the latest version of enthought python installed on all of the machines. I did some searching for _spath.c and scikits-image. There where a few posts but I could not find anything related to version 6.0 of scikits-image. The following are a few links I found that looked promising: https://github.com/stefanv/scikits.image/issues/23 http://blog.philippklaus.de/2011/08/handle-16bit-tiff-images-in-python/ However, none of the links I found tell me what the problem is and how to fix it. The first link above, seems to indicate that the problem is in Cython but I am not sure how to tell if Cython is working (and I am not convinced that this is the problem). The person writing in on the second link seems to have a solution but I can't figure out what the solution is or how to reproduce it. Anyone have any suggestions on what we can try? Thanks, - Dirk

1 0

Re: Progress towards 0.6
by Guillaume Gay June 7, 2012

June 7, 2012

Here is what I get (with tifffile in the python path): ERROR: test suite for <module 'test_tifffile' from '/home/guillaume/Python/scikits-image/skimage/io/tests/test_tifffile.pyc'> ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib/python2.7/dist-packages/nose/suite.py", line 227, in run self.tearDown() File "/usr/lib/python2.7/dist-packages/nose/suite.py", line 350, in tearDown self.teardownContext(ancestor) File "/usr/lib/python2.7/dist-packages/nose/suite.py", line 366, in teardownContext try_run(context, names) File "/usr/lib/python2.7/dist-packages/nose/util.py", line 478, in try_run return func() File "/home/guillaume/Python/scikits-image/skimage/io/tests/test_tifffile.py", line 22, in teardown sio.use_plugin(v[0], k) IndexError: list index out of range ---------------------------------------------------------------------- Ran 14 tests in 0.023s Le 07/06/2012 14:29, Tony Yu a écrit : > > > On Thu, Jun 7, 2012 at 2:30 AM, Guillaume Gay > <guillaume(a)mitotic-machine.org <mailto:guillaume@mitotic-machine.org>> > wrote: > > Hi Tony, > > The test runs fine for me... > > [guillaume]:tests $ python test_tifffile.py > SSS > > ---------------------------------------------------------------------- > Ran 3 tests in 0.001s > > OK (SKIP=3) > > > What should I do to try to reproduce? > > Guillaume > > > Hi Guillaume, > > Could you grab a copy of the tifffile source and put it on your python > path or your working directory? You can copy the body from the following: > > http://www.lfd.uci.edu/~gohlke/code/tifffile.py.html > <http://www.lfd.uci.edu/%7Egohlke/code/tifffile.py.html> > > It's an html link, so you can't use "Save As"; you'll have to copy the > text to a text file to save it (I couldn't find a link to a *.py file). > > Thanks a lot for testing, > -Tony > > > > Le 07/06/2012 05:10, Tony Yu a écrit : > > * PR #195 to fix a test error (Can you confirm this error? I > can't see why I'd be the only one to see this error.) > https://github.com/scikits-image/scikits-image/pull/195 > > >

2 1

Re: Progress towards 0.6
by Guillaume Gay June 7, 2012

June 7, 2012

Hi Tony, The test runs fine for me... [guillaume]:tests $ python test_tifffile.py SSS ---------------------------------------------------------------------- Ran 3 tests in 0.001s OK (SKIP=3) What should I do to try to reproduce? Guillaume Le 07/06/2012 05:10, Tony Yu a écrit : > * PR #195 to fix a test error (Can you confirm this error? I can't see > why I'd be the only one to see this error.) > https://github.com/scikits-image/scikits-image/pull/195

2 1

Re: Progress towards 0.6
by Tony Yu June 6, 2012

June 6, 2012

On Tue, Jun 5, 2012 at 11:52 PM, Stéfan van der Walt <stefan(a)sun.ac.za>wrote: > Hi, everyone > > Here's a Huboard overview of scikits-image: > > http://huboard.com/scikits-image/scikits-image/board# > > Have a look at the 0.6 milestone--these are things we need to finish > up before releasing (shall we aim for Sunday?). > > Stéfan > That sounds good to me. Of the pending PRs, I'd say we should aim to merge the following: * PR #195 to fix a test error (Can you confirm this error? I can't see why I'd be the only one to see this error.) https://github.com/scikits-image/scikits-image/pull/195 * PR #194 to fix PyFITS https://github.com/scikits-image/scikits-image/pull/194 * PR #193 to make conversion between signed -> unsigned ints symmetric in dtype.convert https://github.com/scikits-image/scikits-image/pull/193 The rest are enhancements (which would be nice to have but aren't show stoppers). Of those remaining PRs, I'd say that the following are really close * PR #145, which adds `resample` https://github.com/scikits-image/scikits-image/pull/145 * PR #119, which adds SSIM https://github.com/scikits-image/scikits-image/pull/119 I'm traveling to a conference this weekend, but I should be able to help out a bit with any last minute work, if necessary. -Tony

1 0

memory problem
by lorenzo June 6, 2012

June 6, 2012

I try to run my python program with a large matrix image. Unfortunately I receive an memory error. Here the program (that run in window PC) that donot crash with image represented by matrix 3000 x 3000. With 7000 x 7000 do not works. Even increasinf the virtual memory the problem still remain. best reg Lorenzo Bottai import skimage.graph as graph from skimage import filter from skimage.morphology import watershed, is_local_maximum from scipy import ndimage import os, numpy, sys, time,math,csv from osgeo import gdal, ogr from osgeo.gdalconst import * from math import * from gdalconst import * startTime = time.time() os.chdir(r'c:\Users\lorenzo\lidar2') # register all of the GDAL drivers gdal.AllRegister() # open the image inDs1 = gdal.Open('conv_utm2m.tif',GA_ReadOnly) print 'legge immagine di convergenza' #inDs2 = gdal.Open('htree_corretto_filt.rst',GA_ReadOnly) # get image size rows = inDs1.RasterYSize cols = inDs1.RasterXSize bands = inDs1.RasterCount transform = inDs1.GetGeoTransform() driver = gdal.GetDriverByName('GTiff') #outDs = driver.Create('origf3_flessi.tif', cols, rows, 1, GDT_Int32) outDs1 = driver.Create('conv_massimo.tif', cols, rows, 1, GDT_Int32) outDs2 = driver.Create('conv_chiome.tif', cols, rows, 1, GDT_Int32) print 'righe', rows, 'colonne', cols, 'bande', bands driver1 = inDs1.GetDriver() #driver2 = inDs2.GetDriver() convergenza = numpy.ones((rows,cols),numpy.float) massimi =numpy.zeros((rows,cols),numpy.int) chiome = numpy.zeros((rows,cols),numpy.float) inBand1 = inDs1.GetRasterBand(1) print 'leggo convergenza' convergenza = inBand1.ReadAsArray(0,0,cols,rows).astype(numpy.float) print ' cerco il massimo locale sulla convergenza' massimi = is_local_maximum(convergenza) print ' numero in modo progressimo i massimi' markers = ndimage.label(massimi)[0] print ' allago le pozze ........' chiome = watershed(-convergenza, markers) outBand1 = outDs1.GetRasterBand(1) outBand2 = outDs2.GetRasterBand(1) outBand1.WriteArray(massimi, 0, 0) outBand1.FlushCache() stats1 = outBand1.GetStatistics(0, 1) outBand2.WriteArray(chiome, 0, 0) outBand2.FlushCache() stats2 = outBand2.GetStatistics(0, 1) outDs1.SetGeoTransform(transform) outDs2.SetGeoTransform(transform) outDs1 = None outDs2 = None inDs1 = None print 'script took', time.time() - startTime, 'seconds to run'

2 1

Progress towards 0.6
by Stéfan van der Walt June 5, 2012

June 5, 2012

Hi, everyone Here's a Huboard overview of scikits-image: http://huboard.com/scikits-image/scikits-image/board# Have a look at the 0.6 milestone--these are things we need to finish up before releasing (shall we aim for Sunday?). Stéfan

1 0