[Blends-commit] r3502 - /projects/pan/trunk/debian-pan/tasks/unsorted

picca at users.alioth.debian.org picca at users.alioth.debian.org
Sun Jul 15 19:34:08 UTC 2012 

Author: picca
Date: Sun Jul 15 19:34:07 2012
New Revision: 3502

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=3502
Log:
more descriptions

Modified:
    projects/pan/trunk/debian-pan/tasks/unsorted

Modified: projects/pan/trunk/debian-pan/tasks/unsorted
URL: http://svn.debian.org/wsvn/blends/projects/pan/trunk/debian-pan/tasks/unsorted?rev=3502&op=diff
==============================================================================
--- projects/pan/trunk/debian-pan/tasks/unsorted (original)
+++ projects/pan/trunk/debian-pan/tasks/unsorted Sun Jul 15 19:34:07 2012
@@ -262,14 +262,21 @@
 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. 
+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
+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
 
@@ -284,14 +291,25 @@
 Depends: xmaxima
 
 Suggests: xotoko
-Homepage: http://www.small-angle.ac.uk/dms/small-angle/linux/xotoko-tar/xotoko.tar.gz
-License: ?
-Pkg-Description: ?
+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
@@ -303,15 +321,89 @@
 
 Suggests: 3dna
 Homepage: http://x3dna.org/
-Pkg-Description: ?
+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
-Pkg-Description: ?
+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
-Pkg-Description: ?
+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
@@ -320,7 +412,7 @@
 Depends: apbs
 
 Suggests: aplx
-Homepage: http://www.microapl.co.uk/apl/|APLx
+Homepage: http://www.microapl.co.uk/apl
 License: non-free
 Comment: non-free APL language is it really usefull ?
 Pkg-Description: ?

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