Directory UNIT_TESTER/run/impexp/

Total Files:
38
Deleted Files:
1
Lines of Code:
4437

[root]/UNIT_TESTER/run/impexp

Lines of Code

UNIT_TESTER/run/impexp/ Lines of Code

Developers

Author Changes Lines of Code Lines per Change
westram 49 (100.0%) 4402 (100.0%) 89.8

Most Recent Commits

westram 2016-01-28 09:33 Rev.: 14682


* merge [14675:14681] from 'gde' into 'trunk'
- change DB interface function concerned with GB_FLOAT from double -> float
- introduce more stable ascii <-> float conversion
* adds: log:branches/gde@14676:14681

10 lines of code changed in 1 file:

  • UNIT_TESTER/run/impexp: xml.eft.exported (+10 -2)
westram 2015-01-21 16:21 Rev.: 13424


* remove extra space at end of last sequence line

1 lines of code changed in 1 file:

  • UNIT_TESTER/run/impexp: embl.eft.exported (+1 -1)
westram 2015-01-21 16:10 Rev.: 13423


* fix embl export filter (#638):
- print base count on right side of sequence (uses 'numright' added with [13420])

3 lines of code changed in 2 files:

  • UNIT_TESTER/run/impexp: embl.eft.exported (new)
westram 2012-04-19 09:13 Rev.: 8607


merge from e4fix [8135] [8136] [8137] [8138] [8139] [8140] [8141] [8142] [8143] [8144] [8222]
(this revives the reverted patches [8129] [8130] [8131] [8132]; see [8133])

* fixes
- some free/delete mismatches
- wrong definition of ORF objects (Level was no bit value)
- amino consensus (failed for columns only containing 'C')
* rename
- AA_sequence_term -> orf_term
- ED4_sequence_terminal_basic -> ED4_abstract_sequence_terminal
* cleaned up hierarchy dumps
* tweaked is_terminal()/to_terminal()

0 lines of code changed in 5 files:

  • UNIT_TESTER/run/impexp: conv.SWISSPROT_2_GCG.expected (changed), conv.SWISSPROT_2_NEXUS.expected (changed), conv.SWISSPROT_2_PHYLIP.expected (changed), conv.SWISSPROT_2_PRINTABLE.expected (changed), nexus.eft.exported (changed)
westram 2010-10-26 09:51 Rev.: 7053


* updated broken date (1910->2010)

0 lines of code changed in 2 files:

  • UNIT_TESTER/run/impexp: ae2.eft.exported (changed)
westram 2010-10-25 19:47 Rev.: 7046


* refactored CONVERTALN (merges [6885] [6886] [6888] [6889] [6890] [6891] [6894] [6906] [6907] [6908] [6910] [6911] [6914] [6915] [6916] [6917] [6918] [6922] [6923] [6925] [6927] [6928] [6929] [6930] [6931] [6933] [6934] [6935] [6937] [6945] [6950] [6956] [6961] [6962] [6963] [6964] [6965] [6967] [6968] [6972] [6973] [6974] [6975] [6976] [6977] [6979] [6980] [6981] [6982] [6983] [6985] [6986] [6987] [6988] [6990] [6991] [6992] [6993] [6994] [6995] [6996] [6997] [6998] [6999] [7002] [7003] [7008] [7009] [7010] [7011] [7012] [7025] [7026] [7027] [7029] [7030] [7031] [7032] [7034] [7035] [7036])
- build arb_convert_aln in ARB standard way
- added unit-test
- fixed various date bugs (even Y2K)
- fixed conversion MACKE -> GCG.
- fixed crash in conversions EMBL/GENBANK -> GCG
- fixed SWISSPROT->MACKE conversion
- dropped conversion support for ALMA
- removed completely unused "formats" NBRF and STADEN
- removed 1x1 sequence conversions for interleaved formats
- converter is more picky (fails instead of doing nonsense)
- added self conversions for all input formats
- proper formatting of 3/5 info
- proper line wrapping
- fixed acc broken by genbank reader
- fixed broken IDs (short-names)
- fixed embl reader (added number @ EOL to sequence data)
- errors now refer to the input file + linenumber
- abort with error if sequence data contains invalid characters
- removed C-interface for FileBuffer (CONVERTALN was the only client)

4361 lines of code changed in 36 files:

  • UNIT_TESTER/run/impexp: conv.EMBL_2_EMBL.expected (new 191), conv.EMBL_2_GCG.expected (new 56), conv.EMBL_2_GENBANK.expected (new 176), conv.EMBL_2_MACKE.expected (new 153), conv.EMBL_2_NEXUS.expected (new 207), conv.EMBL_2_PHYLIP.expected (new 156), conv.EMBL_2_PRINTABLE.expected (new 173), conv.GENBANK_2_EMBL.expected (new 151), conv.GENBANK_2_GCG.expected (new 46), conv.GENBANK_2_GENBANK.expected (new 140), conv.GENBANK_2_MACKE.expected (new 125), conv.GENBANK_2_NEXUS.expected (new 185), conv.GENBANK_2_PHYLIP.expected (new 136), conv.GENBANK_2_PRINTABLE.expected (new 163), conv.MACKE_2_EMBL.expected (new 215), conv.MACKE_2_GCG.expected (new 39), conv.MACKE_2_GENBANK.expected (new 183), conv.MACKE_2_MACKE.expected (new 153), conv.MACKE_2_NEXUS.expected (new 207), conv.MACKE_2_PHYLIP.expected (new 156), conv.MACKE_2_PRINTABLE.expected (new 173), conv.MACKE_2_SWISSPROT.expected (new 215), conv.PROTEIN_2_PHYLIP.expected (new 10), conv.PROTEIN_2_PRINTABLE.expected (new 13), conv.SWISSPROT_2_GCG.expected (new 90), conv.SWISSPROT_2_MACKE.expected (new 75), conv.SWISSPROT_2_NEXUS.expected (new 33), conv.SWISSPROT_2_PHYLIP.expected (new 10), conv.SWISSPROT_2_PRINTABLE.expected (new 13), conv.SWISSPROT_2_SWISSPROT.expected (new 83), embl.input (new 255), genbank.input (new 120), macke.input (new 153), nexus.eft.exported (new 29), paup.eft.exported (del), swissprot.input (new 78)
westram 2010-10-25 16:52 Rev.: 7040


* merged from refactor [6875] [6876] [6877] [6878] [6879] [6880] [6881] [6882] [6892] [6893] [6902] [6909] [6919] [6920] [6921] [6924] [6938]
- formatted alignment of test-db
- added TEST_ASSERT_TEXTFILE_DIFFLINES
- added special mode that treats different dates as equal
- moved file compare tests to ARBDB (shall goto ARBCORE later)
- added tests for sequence export
- big test indicator
- skip SLOW warning when running under valgrind
- no ':' in patch names
* fixes included:
- do not export full installation path when exporting sequences as xml
- stuffed a leak in XML-exporter

27 lines of code changed in 2 files:

  • UNIT_TESTER/run/impexp: xml.eft.exported (new)
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