Directory NTREE/

Directory Created:
2000-11-23 10:41
Total Files:
44
Deleted Files:
39
Lines of Code:
19202

[root]/NTREE

Lines of Code

NTREE/ Lines of Code

Developers

Author Changes Lines of Code Lines per Change
Totals 2627 (100.0%) 62059 (100.0%) 23.6
westram 2473 (94.1%) 47105 (75.9%) 19.0
oldcode 35 (1.3%) 9712 (15.6%) 277.4
yadhu 54 (2.1%) 3232 (5.2%) 59.8
richter 23 (0.9%) 1336 (2.2%) 58.0
meierh 8 (0.3%) 471 (0.8%) 58.8
murban 5 (0.2%) 123 (0.2%) 24.6
epruesse 16 (0.6%) 63 (0.1%) 3.9
huberj 4 (0.2%) 9 (0.0%) 2.2
baderk 6 (0.2%) 4 (0.0%) 0.6
boehnel 1 (0.0%) 3 (0.0%) 3.0
brettske 1 (0.0%) 1 (0.0%) 1.0
artemov 1 (0.0%) 0 (0.0%) 0.0

Most Recent Commits

westram 2021-10-10 08:33 Rev.: 18781


* reintegrates 'help' into 'trunk'
- relocate help sources
* adds: log:branches/help@18763:18780

2 lines of code changed in 1 file:

  • NTREE: AP_consensus.cxx (+2 -2)
westram 2021-10-07 18:18 Rev.: 18754


* define {{{ItemSelector}}} for SAIs (lacks changekey functionality, i.e. does not fit into a search&query).
* mark places where species-selector is misused for SAIs.

1 lines of code changed in 1 file:

  • NTREE: ad_ext.cxx (+1 -1)
westram 2021-09-15 12:52 Rev.: 18730


* remove trailing whitespace from c source.

15 lines of code changed in 9 files:

  • NTREE: ColumnStat_2_gnuplot.cxx (+2 -2), NT_branchAnalysis.cxx (+1 -1), NT_concatenate.cxx (+2 -2), NT_dbrepair.cxx (+1 -1), NT_main.cxx (+4 -4), NT_tree_cmp.cxx (+2 -2), NT_validNameParser.h (+1 -1), ScrollSynchronizer.cxx (+1 -1), ad_spec.cxx (+1 -1)
westram 2021-09-07 09:37 Rev.: 18704


* reintegrates 'tree' into 'trunk'
* adds: log:branches/tree@18666:18703

16 lines of code changed in 3 files:

  • NTREE: Makefile (+2), NT_extern.cxx (+6 -6), ad_trees.cxx (+8 -6)
westram 2021-09-02 08:46 Rev.: 18697


* full update from child 'stable' into 'trunk'
- merge changes done to arb-7.0 release candidate
* adds: log:branches/stable@18690:18695

1 lines of code changed in 1 file:

  • NTREE: NT_main.cxx (+1 -1)
westram 2021-08-17 14:15 Rev.: 18665


* change many WARN_TODO triggered warnings into todo markers.

4 lines of code changed in 4 files:

  • NTREE: ColumnStat_2_gnuplot.cxx (+1 -3), NT_dbrepair.cxx (+1 -3), NT_extern.cxx (+2 -3), ad_trees.cxx (-3)
westram 2021-05-26 16:01 Rev.: 18652


* fix nameserver admin layout:
- status field now colored and resizeable
- change title
* change term 'name server' -> 'nameserver'.

1 lines of code changed in 1 file:

  • NTREE: NT_extern.cxx (+1 -1)
westram 2021-05-26 15:50 Rev.: 18651


* add 'configure' button to 'synchronize ids'
- refactored AW_create_namesadmin_window -> AW_popup_namesadmin_window.
- document

1 lines of code changed in 1 file:

  • NTREE: NT_extern.cxx (+1 -1)
westram 2021-02-18 16:33 Rev.: 18643


* allow to 'edit bootstraps'
- document example.
- when a replacement results in an empty string => remove remark.

2 lines of code changed in 1 file:

  • NTREE: NT_extern.cxx (+2 -1)
westram 2021-02-01 17:10 Rev.: 18641


* fixes #824
- define stacksize required for tree-display in {{{TreeDisplay.hxx}}} (currently 20Mb)
- use that stacksize NTREE and PARSIMONY.

18 lines of code changed in 2 files:

  • NTREE: Makefile (+14), NT_main.cxx (+4 -2)
westram 2020-11-10 16:24 Rev.: 18634


* reintegrates 'root' into 'trunk'
- implements #449
* adds: log:branches/root@18451:18633

975 lines of code changed in 4 files:

  • NTREE: Makefile (+45), NT_extern.cxx (+3 -2), NT_local_proto.h (+3), NT_syncroot.cxx (new 924)
westram 2020-09-23 12:48 Rev.: 18481


* set "TAB separated" as default NDS column delimiter.
- rename AWAR to reset properties in userland.

4 lines of code changed in 1 file:

  • NTREE: NT_extern.cxx (+4 -4)
westram 2020-05-14 18:21 Rev.: 18463


* reintegrates 'top' into 'trunk'
* adds: log:branches/top@18453:18462

37 lines of code changed in 4 files:

  • NTREE: NT_edconf.cxx (+31 -17), NT_extern.cxx (+2), NT_local.h (+1), ad_ext.cxx (+3)
westram 2020-03-03 12:23 Rev.: 18352


* full update from child 'fix' into 'trunk'
* adds: log:branches/fix@18339:18351

1 lines of code changed in 1 file:

  • NTREE: NT_main.cxx (+1 -1)
westram 2020-02-26 18:46 Rev.: 18339


* full update from child 'fix' into 'trunk'
- fixes #754
* adds: log:branches/fix@18333:18338

2 lines of code changed in 1 file:

  • NTREE: NT_main.cxx (+2)
westram 2020-02-25 16:32 Rev.: 18325


* result of sorting database by a criteria with non-strict species order is implementation dependent.
- test explicit order only for one OS (that test has only minor/no importance)

7 lines of code changed in 1 file:

  • NTREE: NT_sort.cxx (+7)
westram 2020-02-21 13:07 Rev.: 18311


* reintegrates 'saicalc' into 'trunk'
- implements #730
* adds: log:branches/saicalc@18141:18310

7 lines of code changed in 5 files:

  • NTREE: AP_consensus.cxx (+1 -1), Makefile (+1), NT_extern.cxx (+3 -1), NT_ins_col.cxx (+1 -1), needs_libs (+1)
westram 2019-11-18 15:45 Rev.: 18214


* stuff leak in test code.

1 lines of code changed in 1 file:

  • NTREE: NT_sort.cxx (+1)
westram 2019-11-08 15:27 Rev.: 18208


* full update from child 'fix' into 'trunk'
- finish tests introduced with [18200]
* adds: log:branches/fix@18194:18207

76 lines of code changed in 1 file:

  • NTREE: NT_sort.cxx (+76 -40)
westram 2019-11-07 14:45 Rev.: 18200


* reintegrates 'bugfix' into 'trunk'
- add unittest for "sort database"
- fix #820
* adds: log:branches/bugfix@18196:18199

84 lines of code changed in 2 files:

  • NTREE: Makefile (+1), NT_sort.cxx (+83 -9)
westram 2019-10-08 16:51 Rev.: 18159


* full update from child 'fix' into 'trunk'
- fix item name accessors ({{{GBT_get_name}}} + {{{GBT_get_name_or_description}}})
- add {{{null2empty}}}
* adds: log:branches/fix@18140:18158

18 lines of code changed in 7 files:

  • NTREE: NT_concatenate.cxx (+12 -11), NT_dbrepair.cxx (+1 -1), NT_edconf.cxx (+1 -1), NT_main.cxx (+1 -1), NT_shadeTree.cxx (+1 -1), ScrollSynchronizer.cxx (+1 -2), ad_spec.cxx (+1 -1)
westram 2019-07-17 15:27 Rev.: 17982


* reduced use of GB_change_my_security:
- use GB_securityLevel instead of manually fiddling around with GB_change_my_security.
- inspected and accepted leftover uses (see comments).

1 lines of code changed in 1 file:

  • NTREE: NT_extern.cxx (+1 -1)
westram 2019-07-17 15:22 Rev.: 17980


* use security objects instead of manually calling GB_push/pop_my_security.
* eliminate GB_push/pop_my_security.
* fix scoping using a TA object.

8 lines of code changed in 3 files:

  • NTREE: NT_dbrepair.cxx (+1 -2), NT_extern.cxx (+2 -4), NT_main.cxx (+5 -8)
westram 2019-07-02 13:45 Rev.: 17944


* FIXES crash in RELEASE version (when invalid color group occurs in database).
* add assertions against
- invalid color_groups and
- invalid unshaded GCs.
* ARBDB color-group interface:
- define number of allowed color groups in ARBDB
- fix interface types (long->int)
- report error when color_group passed to {{{GBT_set_color_group}}} is out-of-range.
- {{{GBT_get_color_group}}} does range check. returns 0 if out-of-range.

1 lines of code changed in 2 files:

  • NTREE: Makefile (+1), NT_extern.cxx (-1)
westram 2019-05-10 12:57 Rev.: 17877


* reintegrates 'gcc' into 'trunk'
* adds: log:branches/gcc@17850:17876

2 lines of code changed in 1 file:

  • NTREE: ad_spec.cxx (+2 -2)
westram 2019-04-29 13:44 Rev.: 17836


* reintegrates 'clone' into 'trunk'
* adds: log:branches/clone@17813:17835

6 lines of code changed in 5 files:

  • NTREE: NT_concatenate.cxx (+1 -1), NT_join.cxx (+1 -1), NT_tree_cmp.cxx (+1 -1), ad_ext.cxx (+2 -2), ad_spec.cxx (+1 -1)
westram 2019-04-05 18:32 Rev.: 17748


* remove hardcoded 'markCreated==true' from
- GBT_find_or_create_species_rel_species_data and
- GBT_find_or_create_species.
* hardcode 'markCreated==false' in GBT_find_or_create_SAI.
- changes result DB.
- increase diff buf size (result DB has loooong lines).

1 lines of code changed in 1 file:

  • NTREE: AP_consensus.cxx (+1 -1)
westram 2019-04-04 15:47 Rev.: 17742


* fix unnecessary typos.

1 lines of code changed in 1 file:

  • NTREE: NT_tree_cmp.cxx (+1 -1)
westram 2019-04-01 16:41 Rev.: 17724


* partial merge from 'fts' into 'trunk'
- {{{ConfigMapping}}}:
* cleanup
* add missing tests
* fix config bug: trailing backslash at end of values did cause wrong read of data
* adds: log:branches/fts@17718:17723

9 lines of code changed in 3 files:

  • NTREE: Makefile (+9), NT_edconf.cxx (-1), NT_group_search.cxx (-1)
westram 2019-03-07 17:30 Rev.: 17651


* reintegrates 'cleanup' into 'trunk'
* adds: log:branches/cleanup@17627:17650

4 lines of code changed in 1 file:

  • NTREE: NT_concatenate.cxx (+4 -4)
westram 2018-10-31 09:52 Rev.: 17593


* reintegrates 'fix' into 'trunk'
- performs #798
* adds genetic code tables (24-31)
* adds combined amino acid J (I or L)
* improved translate and/or realign
- handle optional start-/stop-codons
- improve recognition of nuc-triples containing IUPAC-codes
* error messages now always list EMBL table numbers
* adds:
- log:branches/fix@17480:17485,17491:17492,17494:17507,17509:17528,17534:17592
- log:branches/optional@17481:17568

9 lines of code changed in 1 file:

  • NTREE: AP_consensus.cxx (+9 -9)
westram 2018-10-17 10:00 Rev.: 17478


* reintegrates 'svalues' into 'trunk'
- implements #614
* adds: log:branches/svalues@17357:17419,17428:17464,17469,17471:17477

11 lines of code changed in 2 files:

  • NTREE: NT_extern.cxx (-1), ad_trees.cxx (+11 -18)
westram 2018-10-02 15:08 Rev.: 17428


* partial merge from 'svalues' into 'trunk'
- root branches always need to have identical remarks (associated with the root-edge)
* condition previously implicit, now hardened by tests/assertions/...
* fixed several bugs that violated this condition
* adds: log:branches/svalues@17420:17427

3 lines of code changed in 1 file:

  • NTREE: NT_tree_cmp.cxx (+3 -2)
westram 2018-09-20 17:43 Rev.: 17396


* reintegrates 'fix' into 'trunk'
- elim dead code
- use const hash loop
* adds: log:branches/fix@17380,17388:17395

22 lines of code changed in 4 files:

  • NTREE: NT_edconf.cxx (+17 -18), NT_extern.cxx (+1 -1), ad_trees.cxx (+4 -4), ad_trees.h (-1)
westram 2018-09-07 08:22 Rev.: 17356


* add ticket number

4 lines of code changed in 1 file:

  • NTREE: NT_tree_cmp.cxx (+4 -4)
westram 2018-09-03 12:57 Rev.: 17349


* add + document configs for
- reporting transfer quality
- restoring original name (after quality has been reviewed)

4 lines of code changed in 2 files:

  • NTREE: NT_group_search.cxx (+2), ad_trees.cxx (+2)
westram 2018-09-03 12:19 Rev.: 17348


* applying ACI to groupname only had an effect together with overwrite mode {{{KEEP_OLD_NAMES}}}. fixed.

22 lines of code changed in 2 files:

  • NTREE: NT_tree_cmp.cxx (+21 -15), ad_trees.cxx (+1 -1)
westram 2018-08-30 16:24 Rev.: 17342


* reintegrates 'group' into 'trunk'
- implements #780
* adds: log:branches/group@17162:17190,17261:17341

1133 lines of code changed in 5 files:

  • NTREE: Makefile (+5), NT_species_set.h (+87 -30), NT_tree_cmp.cxx (+606 -193), NT_tree_cmp.h (+150 -5), ad_trees.cxx (+285 -82)
westram 2018-08-30 09:58 Rev.: 17336


* typos
- some had ''two'' good language skills ;-)
- fix some plural forms

1 lines of code changed in 1 file:

  • NTREE: NT_main.cxx (+1 -1)
westram 2018-07-23 15:52 Rev.: 17262


* partial merge from 'group' into 'trunk'
- fixes to arb_progress
* adds:
- log:branches/group@17191:17218,17220:17260
- log:branches/progress@17195:17216,17218:17259

13 lines of code changed in 6 files:

  • NTREE: AP_consensus.cxx (+2 -2), NT_dbrepair.cxx (+4 -4), NT_extern.cxx (+4 -4), NT_main.cxx (+1 -1), ad_spec.cxx (+1 -1), ad_trees.cxx (+1 -1)

(1054 more)

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