[Blends-commit] [SCM] pan branch, master, updated. 42b1cfca255b7f5694e3d152bdb2eb3fd0a08721

Picca Frédéric-Emmanuel picca at debian.org
Thu Aug 22 08:01:12 UTC 2013 

The following commit has been merged in the master branch:
commit dfba46e20dfb3e598860dc0fd86eb100054cfa74
Author: Picca Frédéric-Emmanuel <picca at debian.org>
Date:   Thu Aug 22 09:47:21 2013 +0200

    update the tasks to depopulate the unsorted one
    
    now there is only one remaing software in the unsorted task.

diff --git a/tasks/coherent-diffraction b/tasks/coherent-diffraction
index e8ff8d5..45c02d2 100644
--- a/tasks/coherent-diffraction
+++ b/tasks/coherent-diffraction
@@ -3,12 +3,7 @@ Description: coherent diffraction software
  This metapackage will install PAN Blend coherent diffraction packages.
 Comment: Improve the Description
 
-Suggests: hawk
-Homepage: http://xray.bmc.uu.se/hawk/
-License: ?
-Pkg-Description: diffraction pattern reconstruction
-
-Suggest: Bonsu
+Suggest: bonsu
 Homepage: http://code.google.com/p/bonsu/
 License: GPL3+
 Pkg-Description: phase retrieval software package for real-time visualisation
@@ -25,4 +20,14 @@ Pkg-Description: phase retrieval software package for real-time visualisation
   * SPE
   * HDF5 (indirectly through h5py)
   * VTK
-  * NumPy 
\ No newline at end of file
+  * NumPy 
+
+Suggests: hawk
+Homepage: http://xray.bmc.uu.se/hawk/
+License: ?
+Pkg-Description: diffraction pattern reconstruction
+
+Suggests: pynx
+Homepage: http://sourceforge.net/apps/mediawiki/pynx/index.php?title=Main_Page
+License: CeCILL-B
+Pkg-Description: Python tools for Nano-structures Crystallography
diff --git a/tasks/control-systems b/tasks/control-systems
index d728500..70d3427 100644
--- a/tasks/control-systems
+++ b/tasks/control-systems
@@ -5,26 +5,29 @@ Comment: Improve the description
 
 Depends: ghkl
 
+Depends: python-pytango
+
+Depends: python-taurus
+
+Depends: tango-db, tango-starter, tango-accesscontrol
+
+
 Suggests: lima
 Homepage: http://lima.blissgarden.org/index.html
 License: GPL3+
 Pkg-Description: Library for Image Acquisition
 
+Suggests: micromanager
+WNPP: 646853
+Homepage: http://valelab.ucsf.edu/~MM/MMwiki/
+
 Suggests: opengda
 Homepage: http://www.opengda.org
 License: ?
 Pkg-Description: ?
 
-Depends: python-taurus
-
-Depends: tango-db, tango-starter, tango-accesscontrol
-
 Suggests: tomographie-preexperiment-data-collector
 Homepage: https://bitbucket.org/Ingvord/tomography-preexperiment-data-collector/wiki/Home
 License: GPL2+
 Pkg-Description: gather all information from the user that can be
  provided prior to the tomography experiment.
-
-Suggests: micromanager
-WNPP: 646853
-Homepage: http://valelab.ucsf.edu/~MM/MMwiki/
diff --git a/tasks/control-systems-dev b/tasks/control-systems-dev
index e28f480..1aee98e 100644
--- a/tasks/control-systems-dev
+++ b/tasks/control-systems-dev
@@ -6,14 +6,8 @@ Comment: Improve the description
 
 Depends: libhkl-dev
 
-Depends: libtango7-dev
+Depends: libtango8-dev
 
-Suggests: cdma
-Homepage: http://code.google.com/p/cdma/
-License: ?
-Pkg-Description: Common Data Model API
+Depends: python-pytango
 
-Suggests: comete
-Homepage: http://sourceforge.net/apps/trac/comete/
-License: ?
-Pkg-Description: widget toolkit
\ No newline at end of file
+Depends: python-taurus
\ No newline at end of file
diff --git a/tasks/data-reduction-frameworks b/tasks/data-reduction-frameworks
index 37c18ff..9b2aef0 100644
--- a/tasks/data-reduction-frameworks
+++ b/tasks/data-reduction-frameworks
@@ -3,6 +3,32 @@ Description: Data reduction frameworks
  This metapackage will install framework dedicated to the data reduction
 Comment: improve the description
 
+Depends: fityk
+
+Depends: gnuplot
+
+Depends: imagej
+
+Depends: libxy-bin
+
+Depends: ngraph-gtk
+
+Depends: octave
+
+Depends: pymca
+
+Depends: qtiplot
+
+Depends: qtoctave
+
+Depends: scilab
+
+Depends: spyder
+
+Depends: vistrails
+
+Depends: xmaxima
+
 Suggests: dawn
 Homepage: http://www.dawb.org/
 License: ?
@@ -29,8 +55,6 @@ Homepage: http://www.edna-site.org
 License: GPL3+ LGPL3+
 Pkg-Description: Framework to build online data analysis programs
 
-Depends: gnuplot
-
 Suggests: graphlab
 Homepage: http://graphlab.org/
 License: Apache License
@@ -41,27 +65,11 @@ Homepage: http://docs.codehaus.org/display/GUMTREE/Home
 License: ?
 Pkg-Description: general purpose data acq and processing
 
-Depends: imagej
-
 Suggests: mantid
 Homepage: http://www.mantidproject.org/Main_Page
 License: ?
 Pkg-Description: ?
 
-Depends: ngraph-gtk
-
-Depends: octave
-
-Depends: pymca
-
-Depends: qtiplot
-
-Depends: qtoctave
-
-Depends: scilab
-
-Depends: spyder
-
 Suggests: thredds
 WNPP: 650261
 Homepage: http://www.unidata.ucar.edu/software/tds/
@@ -70,7 +78,3 @@ Pkg-Description: The THREDDS Data Server (TDS) is a web server that
  provides metadata and data access for scientific datasets, using
  OPeNDAP, OGC WMS and WCS, HTTP, and other remote data access
  protocols.
-
-Depends: vistrails
-
-Depends: xmaxima
diff --git a/tasks/data-reduction-frameworks-dev b/tasks/data-reduction-frameworks-dev
index cae1eb3..7a7f047 100644
--- a/tasks/data-reduction-frameworks-dev
+++ b/tasks/data-reduction-frameworks-dev
@@ -5,6 +5,14 @@ Description: PAN Debian data reduction framework dev
  categories.
 comment: Improve the description
 
+Depends: python-fabio
+
+Depends: python-guidata
+
+Depends: python-guiqwt
+
+Depends: libnexus0, libnexus0-java, libnexus0-python, nexus-tools
+
 Suggests: cdma
 Homepage: http://code.google.com/p/cdma/
 License: ?
@@ -14,17 +22,3 @@ Suggests: comete
 Homepage: http://sourceforge.net/apps/trac/comete/
 License: ?
 Pkg-Description: widget toolkit
-
-Suggests: cpl
-WNPP: 641628
-Homepage: http://www.eso.org/sci/software/cpl/
-License: GPL2+
-Pkg-Description: ESO Common Pipeline Library
-
-Depends: python-fabio
-
-Depends: python-guidata
-
-Depends: python-guiqwt
-
-Depends: libnexus0, libnexus0-java, libnexus0-python, nexus-tools
diff --git a/tasks/gid b/tasks/gid
index 364546c..39d8d65 100644
--- a/tasks/gid
+++ b/tasks/gid
@@ -11,4 +11,11 @@ Pkg-Description: ?
 Suggests: isgisaxs
 Homepage: http://ln-www.insp.upmc.fr/axe4/Oxydes/IsGISAXS/isgisaxs.htm
 License: GPL3+
-Pkg-Description: gisaxs -- diffraction
\ No newline at end of file
+Pkg-Description: gisaxs -- diffraction
+
+Suggests: fitgisaxs
+Homepage: http://lmp.sp2mi.univ-poitiers.fr/en/index.php?option=com_content&task=view&id=124&Itemid=42
+License: ?
+Comment: IgorPro software
+Pkg-Description: ?
+
diff --git a/tasks/mx b/tasks/mx
index 73fd05e..96c3826 100644
--- a/tasks/mx
+++ b/tasks/mx
@@ -795,6 +795,25 @@ License: ?
 Pkg-Description: ?
 Comment: ?
 
+Suggests: mmdb
+WNPP: 679982
+Homepage: http://www.ncbi.nlm.nih.gov/Structure/MMDB/mmdb.shtml
+Vcs-Browser: http://anonscm.debian.org/git/debian-science/packages/mmdb.git
+Vcs-Git: git://anonscm.debian.org/debian-science/packages/mmdb.git
+Pkg-Description: MMDB is designed to assist developers in working with macromolecular coordinate
+ files. The library handles both PDB and mmCIF format files.
+ .
+ The Library also features an internal binary format, portable between different
+ platforms. This is achieved at uniformity of the Library's interface functions,
+ so that there is no difference in handling different formats.
+ .
+ MMDB provides various high-level tools for working with coordinate files,
+ including reading and writing, orthogonal-fractional transforms, generation of
+ symmetry mates, editing the molecular structure and more.
+ .
+ MMDB is previously written by Eugene Krissinel, and is distributed as a part of 
+ the CCP4 suite. This project maintains a current stand-alone version of the library.
+
 Suggests: mosflm
 Homepage: ?
 License: ?
diff --git a/tasks/small-angle-scattering b/tasks/small-angle-scattering
index 3c1bfae..87c0a03 100644
--- a/tasks/small-angle-scattering
+++ b/tasks/small-angle-scattering
@@ -3,6 +3,15 @@ Description: small angle scattering
  This metapackage will install all PAN Blend small angle scattering.
 Comment: improve the description
 
+Depends: fityk
+
+Depends: pyfai
+
+Depends: python-mmtk
+
+Depends: spd
+
+
 Suggests: bsl
 Homepage: http://www.small-angle.ac.uk/dms/small-angle/linux/bsl-tar/bsl.tar.gz
 License: ?
@@ -14,36 +23,14 @@ Homepage: http://code.google.com/p/diffraction-ring-profiler/
 License: GPL3+
 Pkg-Description: A program for extracting electron diffraction ring pattern profiles
 
-Suggests: fit2d
-Homepage: http://www.esrf.eu/computing/scientific/FIT2D/
-License: ?
-Comment: binary only
-Pkg-Description: ?
-
-Depends: fityk
-
-Depends: pyfai
-
 Suggests: sastbx
 Homepage: http://sastbx.als.lbl.gov/wiki/index.php/Main_Page
 License: ?
 Pkg-Description: Small angle scattering
 
-Depends: spd
-
-Suggests: xotoko
-Homepage: http://www.small-angle.ac.uk/small-angle/Software/XOTOKO.html
-License: non-free
-Pkg-Description: XOTOKO is a 1-D interactive data manipulation package
- for (X,Y) data. The program is has a w ide range of applications even
- if some of the instructions and options are specific to X-ray
- applications. OTOKO was originally developed in Hamburg in the 70's
- by P.Bendall, M.Koch and J.Bordas. The program was transferred to
- Daresbury in the mid 80's where it was restructured and enhanced by
- J.Bordas and G.Mant. The program is now available for all major
- hardware platforms (Sun, HP, DEC, SG, PC Linux) in two varieties
- otoko and xotoko. The former runs on character based terminals and
- the latter on X windows based workstations. A PC based version is
- also available from M.Koch (Hamburg). This manual is based on
- contributions from the original authors and R.Rule (ICI, Runcorn).
-Comment: binary-only
\ No newline at end of file
+Suggests: saxsview
+Homepage: http://saxsview.sourceforge.net
+License: GPL3+
+License: ?
+Pkg-Description: ?
+Comment: ?
diff --git a/tasks/tomography b/tasks/tomography
index 81f0454..ad19fd7 100644
--- a/tasks/tomography
+++ b/tasks/tomography
@@ -3,12 +3,6 @@ Description: PAN Blend tomography
  This metapackage will install all PAN Blend tomography packages.
 Comment: improve the Description
 
-Suggests: tomographie-preexperiment-data-collector
-Homepage: https://bitbucket.org/Ingvord/tomography-preexperiment-data-collector/wiki/Home
-License: GPL2+
-Pkg-Description: gather all information from the user that can be
- provided prior to the tomography experiment.
-
 Suggests: freeart
 Homepage: https://forge.epn-campus.eu/projects/freeart
 License: LGPL
@@ -28,4 +22,10 @@ Pkg-Description: backprojection performance-comparison
  architectures using one specific, clinical, high resolution C-arm CT
  dataset of a rabbit. This includes a sophisticated benchmark
  interface, a prototype implementation in C++, and image quality
- measures.
\ No newline at end of file
+ measures.
+
+Suggests: tomographie-preexperiment-data-collector
+Homepage: https://bitbucket.org/Ingvord/tomography-preexperiment-data-collector/wiki/Home
+License: GPL2+
+Pkg-Description: gather all information from the user that can be
+ provided prior to the tomography experiment.
diff --git a/tasks/unsorted b/tasks/unsorted
index 22bdddb..9b3e9e4 100644
--- a/tasks/unsorted
+++ b/tasks/unsorted
@@ -15,1125 +15,3 @@ Pkg-Description: calculate optical properties of synchrotron radiation
 Comment: http://www.aps.anl.gov/Accelerator_Systems_Division/Accelerator_Operations_Physics/software.shtml
 
 X-End-Category: Synchrotron machine
-
-X-Begin-Category: Data acquisition
-
-Depends: ghkl
-
-Suggests: lima
-Homepage: http://lima.blissgarden.org/index.html
-License: GPL3+
-Pkg-Description: Library for Image Acquisition
-
-Suggests: opengda
-Homepage: http://www.opengda.org
-License: ?
-Pkg-Description: ?
-
-Depends: tango-db, tango-starter, tango-accesscontrol
-
-Suggests: tomographie-preexperiment-data-collector
-Homepage: https://bitbucket.org/Ingvord/tomography-preexperiment-data-collector/wiki/Home
-License: GPL2+
-Pkg-Description: gather all information from the user that can be
- provided prior to the tomography experiment.
-
-X-End-Category: Data acquisition
-
-X-Begin-Category: Data Analysis
-
-Suggests: bsl
-Homepage: http://www.small-angle.ac.uk/dms/small-angle/linux/bsl-tar/bsl.tar.gz
-License: ?
-Pkg-Description: small angle scattering
-Comment: binary only
-
-Suggests: cdma
-Homepage: http://code.google.com/p/cdma/
-License: ?
-Pkg-Description: Common Data Model API
-
-Suggests: comete
-Homepage: http://sourceforge.net/apps/trac/comete/
-License: ?
-Pkg-Description: widget toolkit
-
-Suggests: coot
-WNPP: 531904
-Homepage:http://biop.ox.ac.uk/coot/
-License: GPLv3 GPLv2+ LGPLv3
-Pkg-Description: Crystallographic Object-Oriented Toolkit
-
-Suggests: cpl
-WNPP: 641628
-Homepage: http://www.eso.org/sci/software/cpl/
-License: GPL2+
-Pkg-Description: ESO Common Pipeline Library
-
-Suggests: dawn
-Homepage: http://www.dawb.org/
-License: ?
-Pkg-Description: general purpose data acquisition and processing
-
-Suggests: diffraction-ring-profiler
-Homepage: http://code.google.com/p/diffraction-ring-profiler/
-License: GPL3+
-Pkg-Description: A program for extracting electron diffraction ring pattern profiles
-
-Suggests: disp
-Homepage: http://code.google.com/p/disp/
-License: GPL2+
-Pkg-Description: Diffraction Image Statistics Package for R
-
-Suggests: edna
-Homepage: http://www.edna-site.org
-License: GPL3+ LGPL3+
-Pkg-Description: Framework to build online data analysis programs
-
-Depends: python-fabio
-
-Suggests: fit2d
-Homepage: http://www.esrf.eu/computing/scientific/FIT2D/
-License: ?
-Comment: binary only
-Pkg-Description: ?
-
-Suggests: fitgisaxs
-Homepage: http://lmp.sp2mi.univ-poitiers.fr/en/index.php?option=com_content&task=view&id=124&Itemid=42
-License: ?
-Comment: IgorPro software
-Pkg-Description: ?
-
-Depends: fityk
-
-Suggests: freeart
-Homepage: https://forge.epn-campus.eu/projects/freeart
-License: LGPL
-Pkg-Description: SART reconstruction algorithm
-
-Suggests: fullprof
-Homepage: http://www.ill.eu/sites/fullprof
-License: ?
-Comment: binary only
-Pkg-Description: ?
-
-Depends: g3data
-
-Suggests: graphlab
-Homepage: http://graphlab.org/
-License: Apache License
-Pkg-Description: A New Parallel Framework for Machine Learning
-
-Depends: python-guidata
-
-Depends: python-guiqwt
-
-Suggests: gsas
-Homepage: ftp://ftp.ncnr.nist.gov/pub/cryst/gsas/LINUX_gsas+expgui.tar.gz
-License: ?
-Pkg-Description: ?
-
-Suggests: gumtree
-Homepage: http://docs.codehaus.org/display/GUMTREE/Home
-License: ?
-Pkg-Description: general purpose data acq and processing
-
-Suggests: hawk
-Homepage: http://xray.bmc.uu.se/hawk/
-License: ?
-Pkg-Description: diffraction pattern reconstruction
-
-Depends: ifeffit
-
-Depends: imagej
-
-Suggests: imagej-pluggins-tomo
-Homepage: https://www.cells.es/Members/cpascual/files/public/scisoft_files/imagej-tomo-plugins/at_download
-License: ?
-Pkg-Description: ?
-
-Suggests: isgisaxs
-Homepage: http://ln-www.insp.upmc.fr/axe4/Oxydes/IsGISAXS/isgisaxs.htm
-License: GPL3+
-Pkg-Description: gisaxs -- diffraction
-
-Suggests: jpowder
-Homepage: http://www.jpowder.org/
-License: GPL3+
-Pkg-Description: Lightweight powder diffraction data visualizer
-
-Depends: kile
-
-Suggests: mantid
-Homepage: http://www.mantidproject.org/Main_Page
-License: ?
-Pkg-Description: ?
-
-Suggests: micromanager
-WNPP: 646853
-Homepage: http://valelab.ucsf.edu/~MM/MMwiki/
-
-Suggests: mmdb
-WNPP: 679982
-Homepage: http://www.ncbi.nlm.nih.gov/Structure/MMDB/mmdb.shtml
-Vcs-Browser: http://anonscm.debian.org/git/debian-science/packages/mmdb.git
-Vcs-Git: git://anonscm.debian.org/debian-science/packages/mmdb.git
-Pkg-Description: MMDB is designed to assist developers in working with macromolecular coordinate
- files. The library handles both PDB and mmCIF format files.
- .
- The Library also features an internal binary format, portable between different
- platforms. This is achieved at uniformity of the Library's interface functions,
- so that there is no difference in handling different formats.
- .
- MMDB provides various high-level tools for working with coordinate files,
- including reading and writing, orthogonal-fractional transforms, generation of
- symmetry mates, editing the molecular structure and more.
- .
- MMDB is previously written by Eugene Krissinel, and is distributed as a part of 
- the CCP4 suite. This project maintains a current stand-alone version of the library.
-
-Suggests: mmtk
-WNPP: 642586
-Homepage: http://dirac.cnrs-orleans.fr/MMTK/
-Vcs-Browser: http://anonscm.debian.org/git/debian-science/packages/mmtk.git
-Vcs-Git: git://anonscm.debian.org/debian-science/packages/mmtk.git
-Pkg-Description: The Molecular Modelling Toolkit (MMTK) is an Open Source program library
- for molecular simulation applications.
- In addition to providing ready-to-use implementations of standard
- algorithms, MMTK serves as a code basis that can be easily extended and
- modified to deal with standard and non-standard problems in molecular
- simulations.
- MMTK is a package consisting of various modules, most of them written in
- Python, and some in C.
-
-Suggests: nmoldyn
-Homepage: http://dirac.cnrs-orleans.fr/plone/software/nmoldyn/
-Vcs-Browser: http://anonscm.debian.org/git/debian-science/packages/nmoldyn.git
-Vcs-Git: git://anonscm.debian.org/debian-science/packages/nmoldyn.git
-Pkg-Description: ?
-
-Depends: libnexus0, libnexus0-java, libnexus0-python, nexus-tools
-
-Depends: ngraph-gtk
-
-Depends: objcryst-fox
-
-Depends: octave
-
-Suggests: phenix
-Homepage: http://phenix-online.org
-License: ?
-Pkg-Description: automated determination of macromolecular structures
-
-Depends: pyfai
-
-Depends: pymca
-
-Suggests: pynx
-Homepage: http://sourceforge.net/apps/mediawiki/pynx/index.php?title=Main_Page
-License: CeCILL-B
-Pkg-Description: Python tools for Nano-structures Crystallography
-
-Suggests: prestopronto
-Homepage: http://code.google.com/p/prestopronto
-License:GPL3+
-Pkg-Description: Software for analysis of Quick Exafs data
-
-Depends: qtiplot
-
-Depends: qtoctave
-
-Suggests: sastbx
-Homepage: http://sastbx.als.lbl.gov/wiki/index.php/Main_Page
-License: ?
-Pkg-Description: Small angle scattering
-
-Depends: scilab
-
-Depends: sixpack
-
-Depends: spd
-
-Depends: spyder
-
-Suggests: thredds
-WNPP: 650261
-Homepage: http://www.unidata.ucar.edu/software/tds/
-License: MIT
-Pkg-Description: The THREDDS Data Server (TDS) is a web server that
- provides metadata and data access for scientific datasets, using
- OPeNDAP, OGC WMS and WCS, HTTP, and other remote data access
- protocols.
-
-Suggests: threeb
-Homepage: http://www.coxphysics.com/3b
-License: GPL3+
-Pkg-Description: 3B Microscopy Analysis Software. Bayesian analysis of
- blinking and bleaching, or 3B microscopy, is a method which analyses
- data in which many overlapping fluorophores undergo bleaching and
- blinking events, giving the structure at enhanced resolution. By
- using a Hidden Markov Model (HMM), it allows useful information to be
- obtained from data that would be impossible to analyse with standard
- localisation analysis techniques.
-
-Depends: vistrails
-
-Suggests: xrdua
-Homepage: http://sourceforge.net/projects/xrdua/
-License: GPL3+
-Pkg-Description: X-ray Powder Diffraction
-Comment: test if it works with gdl
-
-Depends: libxy-bin
-
-Depends: xmaxima
-
-Suggests: xotoko
-Homepage: http://www.small-angle.ac.uk/small-angle/Software/XOTOKO.html
-License: non-free
-Pkg-Description: XOTOKO is a 1-D interactive data manipulation package
- for (X,Y) data. The program is has a w ide range of applications even
- if some of the instructions and options are specific to X-ray
- applications. OTOKO was originally developed in Hamburg in the 70's
- by P.Bendall, M.Koch and J.Bordas. The program was transferred to
- Daresbury in the mid 80's where it was restructured and enhanced by
- J.Bordas and G.Mant. The program is now available for all major
- hardware platforms (Sun, HP, DEC, SG, PC Linux) in two varieties
- otoko and xotoko. The former runs on character based terminals and
- the latter on X windows based workstations. A PC based version is
- also available from M.Koch (Hamburg). This manual is based on
- contributions from the original authors and R.Rule (ICI, Runcorn).
-Comment: binary-only
-
-X-End-Category: Data Analysis
-
-X-Begin-Category: PXSoft
-Comment: PXSoft from ESRF: mainly non-free software, non
- redistributable code for protein crystallography. Here the url to the
- pxsoft at the esrf
- http://www.esrf.eu/UsersAndScience/Experiments/MX/Software/PXSOFT/
- list of all availables package in the pxsoft directory, which one
- need to be packaged and wich one did not ? Is it possible for the
- esrf to tell which of thoses software are required ?, maybe there is
- very old obsolete soft.
-
-Suggests: 3dna
-Homepage: http://x3dna.org/
-License: non-free
-Pkg-Description: 3DNA is a versatile, integrated software system for
- the analysis, rebuilding and visualization of three-dimensional
- nucleic-acid-containing structures. The software is applicable not
- only to DNA (as the name 3DNA may imply), but also to complicated RNA
- structures and DNA-protein complexes. In 3DNA, structural analysis
- and model rebuilding are two sides of the same coin: the description
- of structure is rigorous and reversible, thus allowing for its exact
- reconstruction based on the derived parameters. 3DNA automatically
- detects all non-cannonical base pairs, base triplets and higher-order
- associations, and coaxially stacked helices; provides a comprehensive
- collection of fiber models of regular DNA and RNA helices; generates
- highly effective schematic presentations that reveal key features of
- nucleic-acid structures; performs undisturbed base mutations, and
- have facilities for the analysis of molecular dynamics simulation
- trajectories.
-Comment: binary-only
-
-Suggests: adxv
-Homepage: http://www.scripps.edu/~arvai/adxv.html
-License: non-free
-Pkg-Description: The principal application of adxv is to display
- protein crystallography X-Ray diffraction data. The data may be
- displayed as a 2-D image, 3-D wire mesh or as integer pixel
- values. Data may be saved as either tiff or postscript files. Adxv
- will display data from most current detectors:
- .
-   * ADSC ccd
-   * Mar ccd
-   * Mar image plate (old and new format)
-   * Raxis II & IV
-   * Fuji image plate
-   * Crystallographic Binary Format (CBF)
-   * XDS .pck files
-   * European Data Format (EDF)
-   * NUMPY (NPY)
-   * Raw binary 8, 16, 32 & 64 bit integer data
-Comment: binary-only
-
-Suggests: aimless
-Homepage: http://www.mrc-lmb.cam.ac.uk/harry/pre/aimless.html
-License: ?
-Pkg-Description: This program scales together multiple observations of
- reflections, and merges multiple observations into an average
- intensity: it is a successor program to SCALA
- .
- Various scaling
- models can be used. The scale factor is a function of the primary
- beam direction, either as a smooth function of Phi (the rotation
- angle ROT), or expressed as BATCH (image) number (deprecated). In
- addition, the scale may be a function of the secondary beam
- direction, acting principally as an absorption correction expanded as
- spherical harmonics. The secondary beam correction is related to the
- absorption anisotropy correction described by Blessing (Ref Blessing
- (1995) ).
- .
- The merging algorithm analyses the data for outliers, and gives
- detailed analyses. It generates a weighted mean of the observations
- of the same reflection, after rejecting the outliers.
- .
- The program does several passes through the data:
- .
-   * initial estimate of the scales
-   * first round scale refinement, using strong data using an I/sigma(I) cutoff
-   * first round of outlier rejection
-   * if both summation and profile-fitted intensity estimates are
-      present (from Mosflm), then the cross-over point is determined
-      between using profile-fitted for weak data and summation for
-      strong data.
-   * first analysis pass to refine the "corrections" to the standard deviation estimates
-   * final round scale refinement, using strong data within limits on the normalised intensity |E|^2
-   * final analysis pass to refine the "corrections" to the standard deviation estimates
-   * final outlier rejections
-   * a final pass to apply scales, analyse agreement & write the output
-     file, usually with merged intensities, but alternatively as file
-     with scaled but unmerged observations, with partials summed and
-     outliers rejected, for each dataset
- .
- Anomalous scattering is ignored during the scale determination (I+ &
- I- observations are treated together), but the merged file always
- contains I+ & I-, even if the ANOMALOUS OFF command is
- used. Switching ANOMALOUS ON does affect the statistics and the
- outlier rejection (qv)
-
-Suggests: albula
-Homepage: http://www.dectris.ch/software_albula.html
-Pkg-Description: Dectris diffraction image viewer and analysis tool
-
-Depends: apbs
-
-Suggests: aplx
-Homepage: http://www.microapl.co.uk/apl
-License: non-free
-Comment: non-free APL language is it really usefull ?
-Pkg-Description: ?
-
-Suggests: atsas
-Homepage: http://www.embl-hamburg.de/biosaxs/software.html
-License: ?
-Comment: which part of the suite is used ?
-Pkg-Description: ?
-
-Depends: autodock
-
-Suggests: autoproc
-Homepage: http://www.globalphasing.com/autoproc
-License: non-free
-Pkg-Description: ?
-
-Depends: openbabel
-
-Suggests: balbes
-Homepage: http://www.ysbl.york.ac.uk/~fei/balbes
-License: ?
-Pkg-Description: ?
-Comment: need ccp4
-
-Suggests: best
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: bioxhit
-Homepage: http://www.bioxhit.org
-License: ?
-Pkg-Description: ?
-
-Suggests: biox-xds
-Homepage: ?
-Pkg-Description: ?
-
-Suggests: bobscript
-Homepage: ?
-Pkg-Description: ?
-
-Suggests: bp3_old
-Homepage: ?
-Comment: old means useless ?
-Pkg-Description: ?
-
-Suggests: c3d
-Homepage: ?
-Comment: file format ?
-Pkg-Description: ?
-
-Suggests: cath
-Homepage: http://www.cathdb.info
-Comment: used ?
-Pkg-Description: ?
-
-Suggests: ccp4
-Homepage: http://www.ccp4.ac.uk
-Pkg-Description: ?
-
-Suggests: cctbx
-WNPP: 679905
-Homepage: http://cctbx.sourceforge.net
-Vcs-Browser: http://anonscm.debian.org/git/debian-science/packages/cctbx.git
-Vcs-Git: git://anonscm.debian.org/debian-science/packages/cctbx.git
-Pkg-Description: CCTBX is a toolbox for developing crystallographic
- software. It provides fundamental and advanced methods and algorithms
- usefull in the scientific fields of crystallography[1], chemistry,
- physics and biology. It also provides Libraries for general
- scientific computing.  The package is organized as a set of ISO C++
- classes with Python bindings.
-
-Suggests: chart
-Homepage: ?
-Pkg-Description: ?
-
-Suggests: chimera
-Homepage: ?
-Pkg-Description: ?
-
-Suggests: chooch
-Homepage: ?
-Pkg-Description: ?
-
-Depends: clustalw
-
-Suggests: cn2coot
-Homepage: ?
-Pkg-Description: ?
-
-Suggests: cns_refine
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: cns_solve
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: crank
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: crystfel
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: das
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: dialboxlinuxdriverdialbox_to_remove
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Depends: dino
-
-Suggests: dna
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: domain-finder
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: dps2ar
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: dviewer
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: dyndom3d
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: edna
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: edna2html
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: elves
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: epmr
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: escet
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: evrouter
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: fit2d
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: fobscom
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Depends: gnuplot
-
-Suggests: gramm
-Homepage: http://vakser.bioinformatics.ku.edu/main/resources_gramm.php
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-
-Suggests: grasp
-Homepage: http://www.doe-mbi.ucla.edu/Software/GRASP.html
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-
-Suggests: ha_ncs
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: harker
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: hbplus
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: hca
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: hkl2map
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: hyss
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: imosflm
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: induced-rad-dam
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: ipymol
-Homepage: http://www.sbgrid.org/news/newsletters/2007/11
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-
-Suggests: ispyb-client
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-
-Depends: default-jdk
-Depends: jmol
-
-Suggests: labelit
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: lam
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: laue
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: liged
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: ligplot
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: ligplus
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: lscale
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: maid
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: main
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: mar345
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: marutils
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-
-Suggests: mercury
-Homepage: http://www.ccdc.cam.ac.uk/free_services/mercury
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Depends: mgltools-pmv
-
-Suggests: mlfsom
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: molscriptmolscript-2.1.2
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: mosflm
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: msi
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: nuccyl
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: nucplot
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: onoono80ono90
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: pgplot_5.2
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: phaser
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: phaser_sad
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: phases
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: phenix
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: pirate
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: plotmtv
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: pointless
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-
-Depends: povray
-
-Suggest: powder
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: promotif
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: pxpy
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Depends: pymol
-
-Depends: python
-
-Suggests: raddose
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Depends: rasmol
-
-Depends: raster3d
-
-Suggests: refmac
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: replace
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: ribbons
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: ringer
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: rmerge
-Comment: hugins-tools ?
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
- 
-Suggests: rosetta
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: rtools
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: saxs
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-
-Suggests: saxsview
-Homepage: http://saxsview.sourceforge.net
-License: GPL3+
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: scala_mpi
-Comment: scala packages ?
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: scsh-0.5.2
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: shakerr
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: sharp
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: shelx
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: sir
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: sir2002
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: snb2.2
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: snow
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: solvesolve-2.08
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: stac-stac2
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: strategy
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: surfnet
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: tcltkblt
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: testcase
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: test_exec
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: textal
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Depends: theseus
-
-Suggests: tools
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: tops
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: usf
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: viewhkl
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: wink
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: workflow-ds
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: workflow-executor
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: xds
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: xiaxia2
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: xprep
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: xrec
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-Suggests: xtalview
-Homepage: ?
-License: ?
-Pkg-Description: ?
-Comment: ?
-
-X-End-Category: PXSoft
diff --git a/tasks/xas b/tasks/xas
index 25b9325..c316033 100644
--- a/tasks/xas
+++ b/tasks/xas
@@ -7,4 +7,13 @@ Depends: horae
 
 Depends: ifeffit
 
-Depends: python-ifeffit
\ No newline at end of file
+Depends: pymca
+
+Depends: python-ifeffit
+
+Depends: sixpack
+
+Suggests: prestopronto
+Homepage: http://code.google.com/p/prestopronto
+License:GPL3+
+Pkg-Description: Software for analysis of Quick Exafs data
\ No newline at end of file

-- 
Debian Pan

More information about the Blends-commit mailing list