Commits · 39c2d538733633d92a31ec852945e61048b16a72 · schwede / openstructure

Aug 20, 2010

fix AddWidgetToPool and rename WrappedWidget to Widget · 39c2d538

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2666 5a81b35b-ba03-0410-adc8-b2c5c5119f08

39c2d538

make query dialog/editor more robust when entering wrong queries · 161f0f19

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2665 5a81b35b-ba03-0410-adc8-b2c5c5119f08

161f0f19

zap the _pdborg suffix when loading entities from pdb.org · c35d6ee5

marco authored 14 years ago

PDB is the de-facto standard when loading structures remotely
and shouldn't require any suffix.

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2664 5a81b35b-ba03-0410-adc8-b2c5c5119f08

c35d6ee5

improve query editor and dialog · 3a703a00

marco authored 14 years ago

This fixes BZDNG-159 and also improves the general user experience
when using the query editor: Instead of basing the interface directly
on the query flags, we put some abstraction in between and use more
descriptive terms. Also, use a timer to delay the display of error
messages in case something is wrong with the query. This is much
easier on the eyes.

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2663 5a81b35b-ba03-0410-adc8-b2c5c5119f08

3a703a00

prettify file-format dialog · 05cf5826

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2662 5a81b35b-ba03-0410-adc8-b2c5c5119f08

05cf5826

Get Handle for interaction potenial in order to have correct residue index · 3dca7965
pascal authored 14 years ago
```
git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2661 5a81b35b-ba03-0410-adc8-b2c5c5119f08
```
3dca7965

Aug 19, 2010

cleanup of map io format ctors · b3cb29dc

andreas authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2660 5a81b35b-ba03-0410-adc8-b2c5c5119f08

b3cb29dc

fix second part of BZDNG-152 · ead562ac

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2659 5a81b35b-ba03-0410-adc8-b2c5c5119f08

ead562ac

make fasta parser more robust by skipping whitespace characters · 4692855d

marco authored 14 years ago

Fixes part of BZDNG-152

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2658 5a81b35b-ba03-0410-adc8-b2c5c5119f08

4692855d

extend query grammar to handle several points in within statement · 73b9ba37

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2657 5a81b35b-ba03-0410-adc8-b2c5c5119f08

73b9ba37

added import of PIR files · 4ac959df

marco authored 14 years ago

This is BZDNG-153

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2656 5a81b35b-ba03-0410-adc8-b2c5c5119f08

4ac959df

added RemoveSequence · f5fddcca

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2655 5a81b35b-ba03-0410-adc8-b2c5c5119f08

f5fddcca

import alg modules · 4fd00f33

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2654 5a81b35b-ba03-0410-adc8-b2c5c5119f08

4fd00f33

Aug 18, 2010

extended dat io handler to accept different bit depths · 608181a4

andreas authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2653 5a81b35b-ba03-0410-adc8-b2c5c5119f08

608181a4

added some missing functionality in PointlistOverlayBase · 93500666

andreas authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2652 5a81b35b-ba03-0410-adc8-b2c5c5119f08

93500666

minor update to docs · 5eda5812

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2651 5a81b35b-ba03-0410-adc8-b2c5c5119f08

5eda5812

fix bug in within statement found by inspection · abb925c7

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2650 5a81b35b-ba03-0410-adc8-b2c5c5119f08

abb925c7

allow SaveSequence and friends to be used without setting the format · 8180b6d0

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2649 5a81b35b-ba03-0410-adc8-b2c5c5119f08

8180b6d0

Aug 13, 2010

modified MSMS surface calculation · 1c853794

tobias authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2648 5a81b35b-ba03-0410-adc8-b2c5c5119f08

1c853794

Aug 12, 2010
- DCD io: increased max number of atoms; implemented stride option (thanks marco) · 71cd5abc
  tobias authored 14 years ago
  
  git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2647 5a81b35b-ba03-0410-adc8-b2c5c5119f08
  71cd5abc
Aug 11, 2010

added LogError to calculate surfaces button · 74b4de79

tobias authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2646 5a81b35b-ba03-0410-adc8-b2c5c5119f08

74b4de79

modified default vdW parameter for carbon atoms to 1.70 (was 1.75) · 21cdbcbd

tobias authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2645 5a81b35b-ba03-0410-adc8-b2c5c5119f08

21cdbcbd

added default 'Flag' also to visibility op · 4ed96712

tobias authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2644 5a81b35b-ba03-0410-adc8-b2c5c5119f08

4ed96712

cosmetic changes to the graphical user interface · fd49ab07

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2643 5a81b35b-ba03-0410-adc8-b2c5c5119f08

fd49ab07

added button to calculate surface to scene window · 23eef498

tobias authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2642 5a81b35b-ba03-0410-adc8-b2c5c5119f08

23eef498

improve writing of TER records · 86cfc86d

marco authored 14 years ago

Fixes BZDNG-147

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2641 5a81b35b-ba03-0410-adc8-b2c5c5119f08

86cfc86d

catch exceptions thrown during PDB import · b51035eb

marco authored 14 years ago

Fixes BZDNG-145

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2640 5a81b35b-ba03-0410-adc8-b2c5c5119f08

b51035eb

if "Flag" attribute doesn't exist, assume zero. · e7b42c92

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2639 5a81b35b-ba03-0410-adc8-b2c5c5119f08

e7b42c92

Aug 10, 2010

fix problem with initialising the size of fixed-size panel widgets · 00ce22c8

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2638 5a81b35b-ba03-0410-adc8-b2c5c5119f08

00ce22c8

make the splitter thinner on MacOS X · 7db5f068

marco authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2637 5a81b35b-ba03-0410-adc8-b2c5c5119f08

7db5f068

remove website from trunk. website is maintained in separate git repository · 235da291
marco authored 14 years ago
```
git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2636 5a81b35b-ba03-0410-adc8-b2c5c5119f08
```
235da291

Aug 06, 2010

Copy TMalign and TMscore to bundle if exist · 94a6bef4

stefan authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2635 5a81b35b-ba03-0410-adc8-b2c5c5119f08

94a6bef4

TmTools for windows Fixed (Escaping problem) · 88e61365

stefan authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2634 5a81b35b-ba03-0410-adc8-b2c5c5119f08

88e61365

Aug 05, 2010

Added new presets (Chains[beautiful coloring by Chain] and Property[highlight properties]) · e11d1553
stefan authored 14 years ago
```
git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2633 5a81b35b-ba03-0410-adc8-b2c5c5119f08
```
e11d1553

Added logging documentation · f88161cd

stefan authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2632 5a81b35b-ba03-0410-adc8-b2c5c5119f08

f88161cd

Improvements for QueryEditorWidget (display error, highlight error) · 40a806c3

stefan authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2631 5a81b35b-ba03-0410-adc8-b2c5c5119f08

40a806c3

QueryEditor renamed to QueryEditorWidget · 214d4333

stefan authored 14 years ago

Display error in widget

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2630 5a81b35b-ba03-0410-adc8-b2c5c5119f08

214d4333

Names of ColoringOperations in preset editor · 1a0a3dd7

stefan authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2629 5a81b35b-ba03-0410-adc8-b2c5c5119f08

1a0a3dd7

Added QueryFlags support for QueryViewWrapper, ColorOps and PresetEditor · 37d81682
stefan authored 14 years ago
```
git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2628 5a81b35b-ba03-0410-adc8-b2c5c5119f08
```
37d81682

Aug 03, 2010

Introduced optimization in bundle scripts · f804c93e

valerio authored 14 years ago

git-svn-id: https://dng.biozentrum.unibas.ch/svn/openstructure/trunk@2627 5a81b35b-ba03-0410-adc8-b2c5c5119f08

f804c93e