July 2017 Commit Log

Number of Commits:

11

Number of Active Developers:

1

westram 2017-07-28 11:12 #11 Rev.: 16185

- comment

1 lines of code changed in 1 file:

• NTREE: ad_trees.h (+1 -1)

westram 2017-07-26 12:22 #10 Rev.: 16181

* fix (unused-)warnings for {{{!ENABLE_CRASH_TESTS}}}

8 lines of code changed in 4 files:

• ARBDB: adhash.cxx (+3 -1), arbdb.cxx (+2)
• CORE: arb_mem.cxx (+1 -1)
• SL/PRONUC: AP_pro_a_nucs.cxx (+2)

westram 2017-07-26 12:01 #9 Rev.: 16180

* fix a weird symbol-export-bug
- made test fail (as INVALID) if ENABLE_CRASH_TESTS was not defined

4 lines of code changed in 1 file:

• SL/INSDEL: insdel.cxx (+4 -2)

westram 2017-07-19 12:25 #8 Rev.: 16164

* reintegrates 'group' into 'trunk'
- implements #653
* adds: log:branches/group@16147:16163

289 lines of code changed in 10 files:

• HELP_SOURCE/oldhelp: group_search.hlp (+11)
• NTREE: Makefile (+1), NT_group_search.cxx (+2)
• SL/GROUP_SEARCH: Makefile (+1), group_search.cxx (+176 -11), group_search.h (+20 -32)
• SOURCE_TOOLS: generate_all_links.sh (+1)
• TEMPLATES: lazy.h (new 77)

westram 2017-07-19 09:29 #7 Rev.: 16159

* DB field shader failed assertion if used field contained e.g. "Infundibulomyces sp. NR-2006a"
- strtof is too smart here -> do not accept inf as result

10 lines of code changed in 1 file:

• SL/ITEM_SHADER: field_shader.cxx (+10 -4)

westram 2017-07-17 09:31 #6 Rev.: 16150

* reintegrates 'fix' into 'trunk'
- select field by name (not by pointer) => field stays selected if item changes
- replace widget- by awar-callbacks (#559; guard with flags where needed)
* adds: log:branches/fix@16129:16149

201 lines of code changed in 3 files:

• SL/DB_SCANNER: db_scanner.cxx (+174 -133), db_scanner.hxx (+21 -16)
• SL/TREEDISP: TreeDisplay.cxx (+6 -2)

westram 2017-07-12 10:08 #5 Rev.: 16127

* reintegrates 'fix' into 'trunk'
- misc. minor fixes + cleanups
* adds: log:branches/fix@16121:16126

162 lines of code changed in 18 files:

• Makefile (+4 -1)
• AWT: awtlocal.hxx (del)
• BINDEP: README (new 10), needs_libs.arb_2_ascii (new 3), needs_libs.arb_2_bin (new 4), needs_libs.arb_export_seq_filtered (new 5), needs_libs.arb_export_sequences (new 5), needs_libs.arb_flush_mem (new 4), needs_libs.arb_probe_match (new 5), needs_libs.arb_proto_2_xsub (new 4), needs_libs.arb_replace (new 3), needs_libs.arb_write_tree_comment (new 4)
• NTREE: NT_group_search.cxx (+4)
• SL/ITEM_SHADER: field_shader.cxx (+24 -11), item_shader.h (+4)
• SOURCE_TOOLS: check_bin_dependencies.pl (new 70), dep.alltargets (+9), generate_all_links.sh (-1)

westram 2017-07-10 11:29 #4 Rev.: 16119

* reintegrates 'saiexport' into 'trunk'
- implements #743
* adds: log:branches/saiexport@16023:16118

2543 lines of code changed in 31 files:

• Makefile (+5 -4)
• ARBDB: ad_load.cxx (+1 -1), admatch.cxx (+6 -1)
• SEQ_QUALITY: SQ_functions.cxx (+4 -1)
• SL: README (+8)
• SL/FILTER: AP_filter.cxx (+201 -29), AP_filter.hxx (+15 -2), Makefile (+1)
• SL/SEQIO: seq_export.cxx (+3 -1)
• SOURCE_TOOLS: dep.4dummy (+1), dep.alltargets (+1), dep.libtargets (+1), generate_all_links.sh (+3 -2)
• TEMPLATES: command_output.h (+35 -21)
• TOOLS: Makefile (+33 -3), arb_export_seq_filtered.cxx (new 293), arb_test.cxx (+114)
• UNIT_TESTER: Makefile.test (+1), sym2testcode.pl (+2 -2), test_runtool.h (+1), test_unit.h (+15 -1)
• UNIT_TESTER/run: TEST_prot_tiny.arb (new 1667)
• UNIT_TESTER/run/tools: exflt_AMI_mf.fasta.expected (new 20), exflt_AMI_skipShort.fasta.expected (new 10), exflt_AMI_unfiltered.fasta.expected (new 20), exflt_DNA_mf.fasta.expected (new 20), exflt_DNA_mfpvp.fasta.expected (new 20), exflt_DNA_partial.fasta.expected (new 2), exflt_DNA_pvp.fasta.expected (new 20), exflt_DNA_unfiltered.fasta.expected (new 20), exflt_empty.fasta.expected (new)

westram 2017-07-08 10:55 #3 Rev.: 16112

* reintegrates 'fix' into 'trunk'
- fixes #267
- adds new default color translation table 'PVP'
* adds: log:branches/fix@16107:16111

14 lines of code changed in 1 file:

• EDIT4: ED4_visualizeSAI.cxx (+14 -19)

westram 2017-07-05 09:54 #2 Rev.: 16081

* allow compilation with gcc 6.4.0

1 lines of code changed in 1 file:

• Makefile (+1 -1)

westram 2017-07-04 16:25 #1 Rev.: 16077

* reintegrates 'fix' into 'trunk'
- adds markerline to load/save-test-DB (bitstring data)
- store encoding in cached bitstring entries (to avoid cache-hit returns wrong encoding; fixes #760)
* adds: log:branches/fix@16072:16076

51 lines of code changed in 8 files:

• ARBDB: ad_save_load.cxx (+5 -1), adtools.cxx (+1 -1), arbdb.cxx (+19 -7)
• PHYLO: PH_main.cxx (+8 -6)
• UNIT_TESTER/run: TEST_arbdbserver_save_expected.arb (+9), TEST_loadsave.arb (changed), TEST_loadsave_ascii.arb (+9), TEST_loadsave_quick.a00 (changed)

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