[Debian-med-packaging] [mrtrix] branch master updated (e710cc9 -> ba21677)
Michael Hanke
mih at alioth.debian.org
Sat Oct 5 08:59:00 UTC 2013
This is an automated email from the git hooks/post-receive script.
mih pushed a change to branch master
in repository mrtrix.
from e710cc9 Add patch for glib 2.32 transition. Closes #665582
new a758c7f Imported Upstream version 0.2.11
new c5dba45 Merge tag 'upstream/0.2.11'
new a7ad3bc Refresh patches.
new f7ca916 Update debian/control
new 0c2385d Fix icon paths
new 5dc82d3 Update changelog.
new 0f92372 Fix broken interpreter name.
new 8a1ce15 Reformat debian/control
new ba21677 Add backport patches for Octave deps.
The 9 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails. The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.
Summary of changes:
Doxyfile | 1462 ++++++-----
build | 62 +-
cmd/cleanup_ANTS_warp.cpp | 122 +
cmd/disp_profile.cpp | 2 +-
cmd/filter_tracks.cpp | 131 +-
cmd/mrcat.cpp | 21 +
cmd/mrconvert.cpp | 6 +-
cmd/mrtransform.cpp | 6 +-
cmd/read_dicom.cpp | 38 +-
cmd/streamtrack.cpp | 8 +-
cmd/tracks2prob.cpp | 32 +-
cmd/tracks2vtk.cpp | 4 +-
debian/changelog | 11 +
debian/control | 15 +-
debian/mrtrix.desktop | 2 +-
debian/mrtrix.menu | 2 +-
debian/patches/debian_build_cfg | 26 +-
debian/patches/glib-single-include.patch | 15 +-
debian/patches/lucid-dsc-patch-octave_deps | 13 +
debian/patches/precise-dsc-patch-octave_deps | 1 +
debian/patches/squeeze-dsc-patch-octave_deps | 1 +
doc/appendix/config.html | 6 +-
doc/appendix/index.html | 6 +-
doc/appendix/mrtrix.html | 6 +-
doc/appendix/refs.html | 6 +-
doc/commands/average.html | 8 +-
.../{mrinfo.html => cleanup_ANTS_warp.html} | 30 +-
doc/commands/csdeconv.html | 8 +-
doc/commands/dicom_filename.html | 6 +-
doc/commands/dir2amp.html | 6 +-
doc/commands/disp_profile.html | 6 +-
doc/commands/dwi2SH.html | 6 +-
doc/commands/dwi2tensor.html | 6 +-
doc/commands/erode.html | 6 +-
doc/commands/estimate_response.html | 6 +-
doc/commands/filter_tracks.html | 14 +-
doc/commands/find_SH_peaks.html | 6 +-
doc/commands/gen_ROI.html | 6 +-
doc/commands/gen_WM_mask.html | 6 +-
doc/commands/gen_unit_warp.html | 6 +-
doc/commands/gendir.html | 6 +-
doc/commands/import_tracks.html | 6 +-
doc/commands/index.html | 5 +-
doc/commands/median3D.html | 6 +-
doc/commands/mrabs.html | 6 +-
doc/commands/mradd.html | 6 +-
doc/commands/mrcat.html | 6 +-
doc/commands/mrconvert.html | 6 +-
doc/commands/mrinfo.html | 6 +-
doc/commands/mrmult.html | 6 +-
doc/commands/mrstats.html | 6 +-
doc/commands/mrtransform.html | 6 +-
doc/commands/mrview.html | 6 +-
doc/commands/normalise_tracks.html | 6 +-
doc/commands/read_dicom.html | 6 +-
doc/commands/read_ximg.html | 6 +-
doc/commands/resample_tracks.html | 6 +-
doc/commands/sample_tracks.html | 6 +-
doc/commands/sdeconv.html | 6 +-
doc/commands/select_tracks.html | 6 +-
doc/commands/streamtrack.html | 6 +-
doc/commands/tensor2ADC.html | 6 +-
doc/commands/tensor2FA.html | 6 +-
doc/commands/tensor2vector.html | 6 +-
doc/commands/tensor_metric.html | 6 +-
doc/commands/threshold.html | 6 +-
doc/commands/track_info.html | 6 +-
doc/commands/tracks2prob.html | 8 +-
doc/commands/tracks2vtk.html | 6 +-
doc/commands/truncate_tracks.html | 6 +-
doc/faq.html | 6 +-
doc/general/cmdline.html | 6 +-
doc/general/formats.html | 6 +-
doc/general/index.html | 6 +-
doc/general/mrview.html | 6 +-
doc/general/overview.html | 6 +-
doc/index.html | 8 +-
doc/install/index.html | 6 +-
doc/install/macosx.html | 8 +-
doc/install/unix.html | 10 +-
doc/install/windows.html | 6 +-
doc/intro.html | 6 +-
doc/tractography/dwi.html | 6 +-
doc/tractography/index.html | 6 +-
doc/tractography/preprocess.html | 6 +-
doc/tractography/roi.html | 6 +-
doc/tractography/tracking.html | 6 +-
icons/tracks.png | Bin 0 -> 3779 bytes
icons/tracks.svg | 289 +++
install_mime_types.sh | 14 +
lib/file/dicom/csa_entry.h | 2 +-
lib/file/dicom/dict.cpp | 2526 ++++++++++++++++----
lib/file/dicom/element.cpp | 68 +-
lib/file/dicom/element.h | 12 +-
lib/file/dicom/image.cpp | 456 +++-
lib/file/dicom/image.h | 161 +-
lib/file/dicom/mapper.cpp | 298 +--
lib/file/dicom/select_cmdline.cpp | 1 -
lib/file/dicom/series.cpp | 3 +-
lib/file/dicom/series.h | 8 -
lib/file/dicom/tree.cpp | 8 +-
lib/file/mmap.cpp | 28 +-
lib/file/mmap.h | 2 +-
lib/image/format/dicom.cpp | 16 +-
lib/image/format/list.cpp | 2 +
lib/image/format/list.h | 2 +-
lib/image/format/mrtrix.cpp | 49 +-
lib/image/format/nifti1.cpp | 58 +-
lib/image/header.cpp | 4 +-
lib/image/mapper.cpp | 184 +-
lib/image/mapper.h | 45 +-
lib/image/object.cpp | 5 +
lib/image/object.h | 14 +-
lib/math/matrix.cpp | 1 -
lib/mrtrix.cpp | 3 +-
lib/mrtrix.h | 9 +-
lib/svn_revision.h | 2 +-
matlab/write_mrtrix.m | 25 +-
matlab/write_mrtrix_tracks.m | 1 +
mrtrix-mime.xml | 49 +
mrtrix-mrview.desktop | 12 +
src/doc/appendix/config.html | 98 -
src/doc/appendix/gpl-3.0.html | 690 ------
src/doc/appendix/index.html | 35 -
src/doc/appendix/mrtrix.html | 178 --
src/doc/appendix/refs.html | 58 -
src/doc/faq.html | 386 ---
src/doc/general/cmdline.html | 363 ---
src/doc/general/data_order.png | Bin 11766 -> 0 bytes
src/doc/general/filemenu.png | Bin 19004 -> 0 bytes
src/doc/general/fileopen.png | Bin 24186 -> 0 bytes
src/doc/general/fileproperties.png | Bin 30171 -> 0 bytes
src/doc/general/focus_ax.png | Bin 65017 -> 0 bytes
src/doc/general/focus_sag.png | Bin 79493 -> 0 bytes
src/doc/general/formats.html | 358 ---
src/doc/general/index.html | 83 -
src/doc/general/mrview.html | 276 ---
src/doc/general/mrview.png | Bin 76599 -> 0 bytes
src/doc/general/new_roi.png | Bin 78182 -> 0 bytes
src/doc/general/open_track.png | Bin 160890 -> 0 bytes
src/doc/general/orientation_overlay.png | Bin 198817 -> 0 bytes
src/doc/general/orientation_plot.png | Bin 155913 -> 0 bytes
src/doc/general/overlay.png | Bin 138044 -> 0 bytes
src/doc/general/overview.html | 193 --
src/doc/general/roi.png | Bin 90206 -> 0 bytes
src/doc/general/screenshot.png | Bin 108698 -> 0 bytes
src/doc/general/sidebar.png | Bin 70828 -> 0 bytes
src/doc/general/track_colour.png | Bin 245915 -> 0 bytes
src/doc/home.png | Bin 654 -> 0 bytes
src/doc/index.html | 72 -
src/doc/install/index.html | 52 -
src/doc/install/macosx.html | 133 --
src/doc/install/unix.html | 284 ---
src/doc/install/windows.html | 109 -
src/doc/intro.html | 164 --
src/doc/left.png | Bin 459 -> 0 bytes
src/doc/right.png | Bin 472 -> 0 bytes
src/doc/stylesheet.css | 63 -
src/doc/tractography/anat.png | Bin 66931 -> 0 bytes
src/doc/tractography/cst_csd.png | Bin 240404 -> 0 bytes
src/doc/tractography/cst_dt.png | Bin 175090 -> 0 bytes
src/doc/tractography/cst_dt_exclude.png | Bin 176741 -> 0 bytes
src/doc/tractography/cst_dt_include.png | Bin 175469 -> 0 bytes
src/doc/tractography/cst_dt_mask.png | Bin 181698 -> 0 bytes
src/doc/tractography/cst_seed.png | Bin 45789 -> 0 bytes
src/doc/tractography/dwi.html | 226 --
src/doc/tractography/dwi.png | Bin 48690 -> 0 bytes
src/doc/tractography/focus.png | Bin 33293 -> 0 bytes
src/doc/tractography/index.html | 60 -
src/doc/tractography/position.png | Bin 67004 -> 0 bytes
src/doc/tractography/preprocess.html | 247 --
src/doc/tractography/response_function.png | Bin 27541 -> 0 bytes
src/doc/tractography/roi.html | 90 -
src/doc/tractography/tdi.png | Bin 116755 -> 0 bytes
src/doc/tractography/tracking.html | 164 --
src/doc/tractography/whole_brain.png | Bin 327405 -> 0 bytes
src/doc/up.png | Bin 406 -> 0 bytes
src/dwi/gradient.cpp | 11 +-
src/dwi/render_frame.cpp | 8 +-
src/dwi/render_frame.h | 13 +-
src/dwi/tractography/file.cpp | 6 +-
src/dwi/tractography/file.h | 3 +
src/dwi/tractography/tracker/base.cpp | 9 +-
src/dwi/tractography/tracker/base.h | 12 +-
src/mrview/mode/normal.cpp | 3 +-
src/mrview/sidebar/overlay.cpp | 7 +-
src/mrview/sidebar/roi_analysis.cpp | 11 +-
src/mrview/sidebar/roi_analysis.h | 4 +-
src/mrview/sidebar/roi_analysis/roi_list.cpp | 37 +-
src/mrview/sidebar/roi_analysis/roi_list.h | 6 +-
src/mrview/sidebar/tractography/track_list.cpp | 6 +-
src/mrview/slice.cpp | 2 +-
src/mrview/slice.h | 4 +
src/mrview/window.cpp | 12 +-
sysconf/darwin.py | 10 +-
sysconf/linux.py | 3 +-
sysconf/windows.py | 18 +-
197 files changed, 4955 insertions(+), 6390 deletions(-)
create mode 100644 cmd/cleanup_ANTS_warp.cpp
create mode 100644 debian/patches/lucid-dsc-patch-octave_deps
create mode 120000 debian/patches/precise-dsc-patch-octave_deps
create mode 120000 debian/patches/squeeze-dsc-patch-octave_deps
copy doc/commands/{mrinfo.html => cleanup_ANTS_warp.html} (56%)
create mode 100644 icons/tracks.png
create mode 100644 icons/tracks.svg
create mode 100755 install_mime_types.sh
create mode 100644 mrtrix-mime.xml
create mode 100644 mrtrix-mrview.desktop
delete mode 100644 src/doc/appendix/config.html
delete mode 100644 src/doc/appendix/gpl-3.0.html
delete mode 100644 src/doc/appendix/index.html
delete mode 100644 src/doc/appendix/mrtrix.html
delete mode 100644 src/doc/appendix/refs.html
delete mode 100644 src/doc/faq.html
delete mode 100644 src/doc/general/cmdline.html
delete mode 100644 src/doc/general/data_order.png
delete mode 100644 src/doc/general/filemenu.png
delete mode 100644 src/doc/general/fileopen.png
delete mode 100644 src/doc/general/fileproperties.png
delete mode 100644 src/doc/general/focus_ax.png
delete mode 100644 src/doc/general/focus_sag.png
delete mode 100644 src/doc/general/formats.html
delete mode 100644 src/doc/general/index.html
delete mode 100644 src/doc/general/mrview.html
delete mode 100644 src/doc/general/mrview.png
delete mode 100644 src/doc/general/new_roi.png
delete mode 100644 src/doc/general/open_track.png
delete mode 100644 src/doc/general/orientation_overlay.png
delete mode 100644 src/doc/general/orientation_plot.png
delete mode 100644 src/doc/general/overlay.png
delete mode 100644 src/doc/general/overview.html
delete mode 100644 src/doc/general/roi.png
delete mode 100644 src/doc/general/screenshot.png
delete mode 100644 src/doc/general/sidebar.png
delete mode 100644 src/doc/general/track_colour.png
delete mode 100644 src/doc/home.png
delete mode 100644 src/doc/index.html
delete mode 100644 src/doc/install/index.html
delete mode 100644 src/doc/install/macosx.html
delete mode 100644 src/doc/install/unix.html
delete mode 100644 src/doc/install/windows.html
delete mode 100644 src/doc/intro.html
delete mode 100644 src/doc/left.png
delete mode 100644 src/doc/right.png
delete mode 100644 src/doc/stylesheet.css
delete mode 100644 src/doc/tractography/anat.png
delete mode 100644 src/doc/tractography/cst_csd.png
delete mode 100644 src/doc/tractography/cst_dt.png
delete mode 100644 src/doc/tractography/cst_dt_exclude.png
delete mode 100644 src/doc/tractography/cst_dt_include.png
delete mode 100644 src/doc/tractography/cst_dt_mask.png
delete mode 100644 src/doc/tractography/cst_seed.png
delete mode 100644 src/doc/tractography/dwi.html
delete mode 100644 src/doc/tractography/dwi.png
delete mode 100644 src/doc/tractography/focus.png
delete mode 100644 src/doc/tractography/index.html
delete mode 100644 src/doc/tractography/position.png
delete mode 100644 src/doc/tractography/preprocess.html
delete mode 100644 src/doc/tractography/response_function.png
delete mode 100644 src/doc/tractography/roi.html
delete mode 100644 src/doc/tractography/tdi.png
delete mode 100644 src/doc/tractography/tracking.html
delete mode 100644 src/doc/tractography/whole_brain.png
delete mode 100644 src/doc/up.png
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