May 2002 Commit Log

Number of Commits:
68
Number of Active Developers:
2
westram 2002-05-31 20:01 Rev.: 608

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37 lines of code changed in 4 files:

westram 2002-05-31 20:00 Rev.: 607

* AWT_dtree.cxx: - only bootstraps != 100% are displayed

53 lines of code changed in 1 file:

westram 2002-05-31 19:59 Rev.: 606

* adtools.c: - 100%-bootstraps are written to the remark branch
- GBT_scale_bootstraps tests if remark_branch contains a bootstrap

12 lines of code changed in 1 file:

westram 2002-05-31 19:57 Rev.: 605

* awt_dtree.hxx: - prototype for AWT_show_remark_branch

1 lines of code changed in 1 file:

westram 2002-05-31 19:57 Rev.: 604

* AWT_irstree.cxx: - uses AWT_show_remark_branch to display bootstraps

128 lines of code changed in 1 file:

westram 2002-05-31 19:57 Rev.: 603

* xml.cxx: - encodes entities in attributes

4 lines of code changed in 1 file:

westram 2002-05-31 19:57 Rev.: 602

* arb_read_tree.cxx: - sets 100% bootstraps

11 lines of code changed in 1 file:

westram 2002-05-31 19:56 Rev.: 601

* AP_tree_edge.cxx: - round bootstrap before it is written to remark_branch

1 lines of code changed in 1 file:

westram 2002-05-31 19:56 Rev.: 600

* ad_trees.cxx: - generates correct tree name from *.ntree

2 lines of code changed in 1 file:

westram 2002-05-31 16:13 Rev.: 599

- some warning fixes
- fixed bug in make XXX/.depend and make .depend which caused
user paths in GDE Makefiles
- GDE Makefiles updated as well

79 lines of code changed in 6 files:

westram 2002-05-31 15:33 Rev.: 598

const warning removed

13 lines of code changed in 1 file:

westram 2002-05-29 16:46 Rev.: 597

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1291 lines of code changed in 15 files:

westram 2002-05-29 16:42 Rev.: 596

latest version from gangolf

72 lines of code changed in 8 files:

westram 2002-05-29 12:43 Rev.: 595

fix a small bug

5 lines of code changed in 1 file:

yadhu 2002-05-29 11:44 Rev.: 594

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4 lines of code changed in 2 files:

yadhu 2002-05-29 10:53 Rev.: 593

makefile dependency generation fixed for GDE

333 lines of code changed in 11 files:

westram 2002-05-28 22:37 Rev.: 592

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15 lines of code changed in 1 file:

westram 2002-05-28 22:25 Rev.: 591

- more warnings
- XML.a is now linked with many programs (cause AWT refers to it)

36 lines of code changed in 1 file:

westram 2002-05-28 22:20 Rev.: 590

routine to export tree -> XML

112 lines of code changed in 2 files:

westram 2002-05-28 22:19 Rev.: 589

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693 lines of code changed in 2 files:

westram 2002-05-28 22:18 Rev.: 588

option to export tree to XML

12 lines of code changed in 1 file:

westram 2002-05-28 22:17 Rev.: 587

does not set branchlengths to default values if -consense is specified

0 lines of code changed in 1 file:

westram 2002-05-28 18:46 Rev.: 586

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2 lines of code changed in 1 file:

westram 2002-05-28 18:45 Rev.: 585

added -Wnon-virtual-dtor for C++

5 lines of code changed in 1 file:

westram 2002-05-28 18:44 Rev.: 584

changes for dump-methods
bugfix for auto-deleted ED4_sequence_info_terminal

267 lines of code changed in 4 files:

westram 2002-05-28 18:43 Rev.: 583

* ED4_main.cxx: - moved dump functions to ED4_dump.cxx

250 lines of code changed in 2 files:

westram 2002-05-28 18:42 Rev.: 582

* ed4_class.hxx: - added method dump which dumps any type of ED4_base for debugging
- made destructor of ED4_sequence_terminal virtual (be careful -
always make destructor virtual if sth is derived from a class)

130 lines of code changed in 1 file:

westram 2002-05-28 14:22 Rev.: 581

removed some debugging code

12 lines of code changed in 2 files:

westram 2002-05-28 14:01 Rev.: 580

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79 lines of code changed in 1 file:

westram 2002-05-28 13:59 Rev.: 579

- added AUTO_FLUSH ( see $ARBHOME/arb_DEBUG.txt )

30 lines of code changed in 2 files:

westram 2002-05-28 13:54 Rev.: 578

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19 lines of code changed in 2 files:

westram 2002-05-28 13:54 Rev.: 577

made all draw()-methods virtual

15 lines of code changed in 1 file:

westram 2002-05-28 13:53 Rev.: 576

* ED4_base.cxx: - hack-around for disappearing sequence after shifting bases (or after mark/unmark)

17 lines of code changed in 1 file:

yadhu 2002-05-27 16:05

1.Prints PROBE information in the secondary editor window.
2.Now, you can STRETCH helices and EXPAND loops in the secondary editor. If you dont like
stretching and expanding you can very well COMPRESS and CONTRACT them as well ;-)).
viel spass!

362 lines of code changed in 8 files:

yadhu 2002-05-27 13:53 Rev.: 573

1.Prints PROBE information in the secondary editor window.
2.Now, you can STRETCH helices and EXPAND loops in the secondary editor. If you dont like
stretching and expanding you can very well COMPRESS and CONTRACT them as well ;-)).
viel spass!

47 lines of code changed in 4 files:

westram 2002-05-27 09:03 Rev.: 572

con -> consensus

107 lines of code changed in 2 files:

westram 2002-05-27 09:02 Rev.: 571

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12 lines of code changed in 1 file:

westram 2002-05-27 09:01 Rev.: 570

renamed con -> consensus

457 lines of code changed in 4 files:

westram 2002-05-23 16:00 Rev.: 569

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195 lines of code changed in 14 files:

westram 2002-05-23 15:58 Rev.: 568

fixed usage of arb_export_rates and arb_convert_aln

22 lines of code changed in 3 files:

westram 2002-05-23 15:32 Rev.: 567

- added 'save & view' to gnuplot window
- calls gnuplot from ARB
- option to activate gnuplot internal smoothing
- overlay previous plots with the same name

325 lines of code changed in 1 file:

westram 2002-05-23 08:29 Rev.: 566

Most changes are made due to activating more warnings for the c++ compiler (linux)

1254 lines of code changed in 44 files:

westram 2002-05-23 08:26 Rev.: 565

allows more arguments to control the input for fastDNAml

60 lines of code changed in 1 file:

westram 2002-05-23 08:25 Rev.: 564

- reworked strange bootstrap code (it is used to read trees, in which the branchlengths are misused as bootstrap values)
- option '-consense' now expects a second argument specifying the # of generated bootstrap trees.
- if a comment exists in treefile it is merged with the comment specified on the command line.

103 lines of code changed in 1 file:

westram 2002-05-23 08:23 Rev.: 563

resets physical zoom after bootstrap calc.

2 lines of code changed in 1 file:

westram 2002-05-23 08:21 Rev.: 562

- passes more parameters to AWT_export_tree()
- made export options configurable
- fixed automatic tree_name creation

101 lines of code changed in 1 file:

westram 2002-05-23 08:20 Rev.: 561

updated help regarding corrected tree I/O routines

53 lines of code changed in 2 files:

westram 2002-05-23 08:19 Rev.: 560

checked most of the GDE tools int Tree/Build tree..
(may they work forever)

29 lines of code changed in 3 files:

westram 2002-05-23 08:18 Rev.: 559

ARB_GDEmenus now set to read-only

1 lines of code changed in 1 file:

westram 2002-05-23 08:17 Rev.: 558

added arb_read_tree_args to list of autodeleted files

1 lines of code changed in 1 file:

westram 2002-05-23 08:15 Rev.: 557

now using version 1.2.1
(old version remains here until somebody deletes it :)

913 lines of code changed in 4 files:

westram 2002-05-23 08:13 Rev.: 556

read all lines from stdin now (not only one line)

16 lines of code changed in 1 file:

westram 2002-05-23 08:12 Rev.: 555

return type of aisc_get_object_attribute changed to const

43 lines of code changed in 2 files:

westram 2002-05-23 08:12 Rev.: 554

removed prototype for gbt_load_tree_rek (not used outside adtools.c)

0 lines of code changed in 1 file:

westram 2002-05-23 08:11 Rev.: 553

tree import error messages contain name of tree

139 lines of code changed in 1 file:

westram 2002-05-23 08:11 Rev.: 552

- AWT_export_tree got new parameters to specify what is saved into a treefile
- exporting bootstraps as values between 0 and 100

131 lines of code changed in 2 files:

westram 2002-05-23 08:09 Rev.: 551

GDE windows do no longer close after pressing 'START'

1 lines of code changed in 1 file:

westram 2002-05-23 08:09 Rev.: 550

GDE argument types 'CHOOSER' and 'CHOICE_MENU' had a bug:
if menu-file was changed, ARB did not recognize that the saved value of the
argument is no longer valid

79 lines of code changed in 1 file:

westram 2002-05-17 16:34 Rev.: 549

changed make and removed superfluous file

11 lines of code changed in 2 files:

westram 2002-05-16 18:41 Rev.: 548

Filename bound to right side

54 lines of code changed in 1 file:

westram 2002-05-16 18:40 Rev.: 547

* ad_trees.cxx: - fixed automatic tree_name creation

61 lines of code changed in 1 file:

westram 2002-05-10 20:15 Rev.: 546

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46 lines of code changed in 7 files:

westram 2002-05-10 20:13 Rev.: 545

changes for AWT_advice

604 lines of code changed in 10 files:

westram 2002-05-10 20:11 Rev.: 544

changed quick saves to 10

2 lines of code changed in 1 file:

westram 2002-05-10 20:01 Rev.: 543

fixed 'remove all aligner entries'

41 lines of code changed in 3 files:

westram 2002-05-08 16:02 Rev.: 542

changes for island hopping

238 lines of code changed in 5 files:

westram 2002-05-02 16:13 Rev.: 541

Config file for doxygen

169 lines of code changed in 1 file:

westram 2002-05-02 16:10 Rev.: 540

Pseudo search fields ('[any field]')

93 lines of code changed in 3 files:

April 2002 »

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