Directory lib/import/

Directory Created:
2000-11-23 10:41
Total Files:
9
Deleted Files:
62
Lines of Code:
680

[root]/lib/import
            directory in repo nonformats (7 files, 783 lines)

Lines of Code

lib/import/ Lines of Code

Developers

Author Changes Lines of Code Lines per Change
Totals 243 (100.0%) 6739 (100.0%) 27.7
westram 211 (86.8%) 5908 (87.7%) 28.0
oldcode 22 (9.1%) 642 (9.5%) 29.1
murban 8 (3.3%) 187 (2.8%) 23.3
yadhu 2 (0.8%) 2 (0.0%) 1.0

Most Recent Commits

westram 2017-10-21 12:40 Rev.: 16564


* reintegrates 'io' into 'trunk'
- implements #691
* adds: log:branches/io@16436:16510,16513:16514,16517,16533:16535,16537:16563

20 lines of code changed in 5 files:

  • lib/import: fasta.ift (+5 -1), fasta_wacc_wgap.ift (+5 -6), fasta_wgap.ift (+3), rdp.ift (+5), universal_dna.ift (+2)
westram 2014-04-08 15:58 Rev.: 11968


* reintegrates 'customize' into 'trunk'
- implements #263
* adds:
- log:branches/customize@11950,11956:11967

0 lines of code changed in 24 files:

  • lib/import: .ae2.ift (del), .bergey.ift (del), .dewachter.ift (del), .dnasis.ift (del), .dssp_2nd_struct.ift (del), .dssp_all.ift (del), .dssp_sequence.ift (del), .fasta_contextual_data_1_03.ift (del), .gcg_rsf.ift (del), .gcg_rsf_pir.ift (del), .gcg_rsf_transl.ift (del), .gcg_seq_only.ift (del), .gde.ift (del), .gde_flat.ift (del), .genbank_old.ift (del), .genbank_prot_from_translation_field.ift (del), .genprot.ift (del), .licor_sequencer.ift (del), .licor_wl.ift (del), .licor_wl_new.ift (del), .nexus.ift (del), .pir.ift (del), .rdp_old.ift (del), .universal_lower_case_dna.ift (del)
westram 2009-07-01 16:19 Rev.: 6096


* Again allow display of hidden files in filter list (reverts part of [6082])
* renamed all rarely-used import filters into .importfilter
- user has to click on 'Show hidden files' to show these filters or to use them in AUTODETECT
* moved a few sub-filters to nonformats
* added .fasta_contextual_data_1_03.ift (thx to Renzo, Joerg and Frank Oliver)
* added fasta_wacc import/export filters (thx to Harald)

1340 lines of code changed in 52 files:

  • lib/import: .ae2.ift (new 7), .bergey.ift (new 80), .dewachter.ift (new 78), .dnasis.ift (new 17), .dssp_2nd_struct.ift (new 7), .dssp_all.ift (new 7), .dssp_sequence.ift (new 7), .fasta_contextual_data_1_03.ift (new 201), .gcg_rsf.ift (new 87), .gcg_rsf_pir.ift (new 77), .gcg_rsf_transl.ift (new 92), .gcg_seq_only.ift (new 20), .gde.ift (new 21), .gde_flat.ift (new 20), .genbank_old.ift (new 112), .genbank_prot_from_translation_field.ift (new 119), .genprot.ift (new 32), .licor_sequencer.ift (new 12), .licor_wl.ift (new 40), .licor_wl_new.ift (new 40), .nexus.ift (new 5), .pir.ift (new 68), .rdp_old.ift (new 144), .universal_lower_case_dna.ift (new 11), ae2.ift (del), bergey.ift (del), dewachter.ift (del), dnasis.ift (del), dssp_2nd_struct.ift (del), dssp_2nd_struct2.ift2 (del), dssp_all.ift (del), dssp_all2.ift2 (del), dssp_sequence.ift (del), dssp_sequence2.ift2 (del), fasta_wacc_wgap.ift (new 36), gcg-rsf.ift (del), gcg-rsf_pir.ift (del), gcg-rsf_transl.ift (del), gcg_seq_only.ift (del), gde.ift (del), gde_flat.ift (del), genbank_old.ift (del), genbank_prot_from_translation_field.ift (del), genprot.ift (del), licor_sequencer.ift (del), licor_wl.ift (del), licor_wl_new.ift (del), nexus.ift (del), nexus2.ift2 (del), pir.ift (del), rdp_old.ift (del), universal_lower_case_dna.ift (del)
westram 2009-07-01 13:38 Rev.: 6092


* import filters mostly SILVA compatible (thx to Frank Oliver)
* moved feature-table into separate filter which is included by longebi.ift and longgenbank.ift
* added AUTOTAGging (commented out)

55 lines of code changed in 3 files:

  • lib/import: fasta_wgap.ift (+1 -1), rdp.ift (+53 -40), universal_dna.ift (+1 -1)
westram 2009-06-13 13:49 Rev.: 6053


* Errors about undefined variables in inport-formats had some meaning for the writer of the input-format, but none for the user of the format.
* new command IFNOTSET for ift
- each 'SETVAR x' expects a corresponding 'IFNOTSET x msg' (and vv.)
* undef error prints reason defined by IFNOTSET
* fixed import filters
* checked feature table sections in longebi.ift and longgenbank.ift for similarity
- typo 'secimen_voucher'
* updated help

18 lines of code changed in 2 files:

  • lib/import: ebi_multi.ift (+1 -1), rdp.ift (+17 -15)
westram 2009-06-03 09:03 Rev.: 5992


* new commands for import filters (WRITE_INT, WRITE_FLOAT)
* Silva-Import-Filters write start, stop, insdc, version as ints
* see ticket #44

thx to fog and elmar


23 lines of code changed in 2 files:

  • lib/import: ebi_silva.ift (+10 -7), genbank_silva.ift (+13 -6)
westram 2008-06-06 13:23 Rev.: 5390

- TAB-Ex

1349 lines of code changed in 35 files:

  • lib/import: ae2.ift (+3 -3), bergey.ift (+60 -60), dewachter.ift (+57 -57), dnasis.ift (+8 -8), dssp_2nd_struct.ift (+3 -3), dssp_2nd_struct2.ift2 (+35 -35), dssp_all.ift (+3 -3), dssp_all2.ift2 (+38 -38), dssp_sequence.ift (+3 -3), dssp_sequence2.ift2 (+35 -35), ebi_multi.ift (+3 -3), ebi_silva.ift (+111 -111), fasta.ift (+16 -16), fasta_wgap.ift (+15 -15), gcg-rsf.ift (+65 -65), gcg-rsf_pir.ift (+55 -55), gcg-rsf_transl.ift (+68 -68), gcg_seq_only.ift (+11 -11), gde.ift (+12 -12), gde_flat.ift (+11 -11), genbank_multi.ift (+3 -3), genbank_old.ift (+86 -86), genbank_prot_from_translation_field.ift (+85 -85), genbank_silva.ift (+100 -100), genprot.ift (+18 -18), licor_sequencer.ift (+7 -7), licor_wl.ift (+27 -27), licor_wl_new.ift (+27 -27), nexus.ift (+3 -3), nexus2.ift2 (+12 -12), pir.ift (+51 -51), rdp.ift (+197 -197), rdp_old.ift (+111 -111), universal_dna.ift (+5 -5), universal_lower_case_dna.ift (+5 -5)
westram 2008-03-05 16:18 Rev.: 5207

- fixed path to perl skripts

5 lines of code changed in 5 files:

  • lib/import: dssp_2nd_struct.ift (+1 -1), dssp_all.ift (+1 -1), dssp_sequence.ift (+1 -1), ebi_multi.ift (+1 -1), genbank_multi.ift (+1 -1)
murban 2008-02-08 19:13 Rev.: 5044

added functions for protein structure comparison; added import filters and perl script for dssp files; added menu entry in EDIT4 for choosing the active protein structure SAI

181 lines of code changed in 7 files:

  • lib/import: dssp.ift (del), dssp_2nd_struct.ift (new 7), dssp_2nd_struct2.ift2 (new 52), dssp_all.ift (new 7), dssp_all2.ift2 (new 56), dssp_sequence.ift (new 7), dssp_sequence2.ift2 (new 52)
westram 2007-12-06 18:58 Rev.: 4983

- read with gaps

1 lines of code changed in 1 file:

  • lib/import: dssp.ift (+1 -1)
westram 2007-12-06 16:35 Rev.: 4980

- fixed auto-detection

1 lines of code changed in 1 file:

  • lib/import: dssp.ift (+1 -1)
murban 2007-12-06 16:07 Rev.: 4979

- dssp import filter

6 lines of code changed in 1 file:

  • lib/import: dssp.ift (new 6)
westram 2007-12-06 13:01 Rev.: 4975

- obsolete

0 lines of code changed in 3 files:

  • lib/import: ebi_mod.ift (del), ebi_old.ift (del), ebi_old2.ift (del)
westram 2007-12-06 13:01 Rev.: 4974

- renamed (_multi)

0 lines of code changed in 2 files:

  • lib/import: ebi.ift (del), genbank.ift (del)
westram 2007-12-06 12:57 Rev.: 4971

- genbank importer (silva-style)

134 lines of code changed in 1 file:

  • lib/import: genbank_silva.ift (new 134)
westram 2007-12-06 12:57 Rev.: 4970

- corrections from fog

3 lines of code changed in 1 file:

  • lib/import: ebi_silva.ift (+3 -3)
westram 2007-11-30 19:13 Rev.: 4961

- basic embl import filter

152 lines of code changed in 1 file:

  • lib/import: ebi_silva.ift (new 152)
westram 2007-11-21 16:17 Rev.: 4952

- calls converter + nonformats/longgenbank.ift (like ebi.ift)

4 lines of code changed in 2 files:

  • lib/import: genbank.ift (+2 -363), genbank_multi.ift (+2 -363)
westram 2007-01-27 13:30 Rev.: 4300

- 'medline'->'medline_id', 'gene_pos'->'nuc_rp', 'pubmed'->'pubmed_id'

17 lines of code changed in 8 files:

  • lib/import: ebi_mod.ift (+2 -2), ebi_old.ift (+2 -2), ebi_old2.ift (+3 -3), genbank.ift (+3 -3), genbank_multi.ift (+3 -3), genbank_old.ift (+1 -1), genbank_prot_from_translation_field.ift (+1 -1), rdp.ift (+2 -2)
westram 2006-01-05 14:13 Rev.: 3994

- fix from WL

20 lines of code changed in 2 files:

  • lib/import: genbank.ift (+10 -10), genbank_multi.ift (+10 -10)
westram 2005-03-17 16:29 Rev.: 3770

- old version of ebi.ift

3 lines of code changed in 1 file:

  • lib/import: ebi_old2.ift (new 3)
westram 2005-03-17 16:29 Rev.: 3769

- prefilter input through embl_gen_long_features.pl and pass to nonformats/longebi.ift

4 lines of code changed in 2 files:

  • lib/import: ebi.ift (+2 -353), ebi_multi.ift (+2 -353)
westram 2005-03-11 12:10 Rev.: 3720

file has been added to release tree in 2001, but never was added to cvs

2 lines of code changed in 1 file:

  • lib/import: ebi_mod.ift (new 2)
westram 2005-02-11 14:27 Rev.: 3634

- old version

142 lines of code changed in 1 file:

  • lib/import: rdp_old.ift (new 142)
westram 2005-02-11 14:27 Rev.: 3633

- new version

174 lines of code changed in 1 file:

  • lib/import: rdp.ift (+174 -66)
westram 2004-09-17 13:44 Rev.: 3175

removed outdated versions

0 lines of code changed in 3 files:

  • lib/import: ebi_2002_wl.ift (del), ebi_2002_wl_test_variables.ift (del), ebi_netscape.ift (del)
westram 2004-09-17 13:43 Rev.: 3174

old versions

225 lines of code changed in 2 files:

  • lib/import: ebi_old.ift (+113 -18), genbank_old.ift (new 112)
westram 2004-09-17 13:41 Rev.: 3173

- like fasta.ift, but keeps alignment

23 lines of code changed in 1 file:

  • lib/import: fasta_wgap.ift (new 23)
westram 2004-09-17 13:41 Rev.: 3172

- new ift's from WL

1278 lines of code changed in 4 files:

  • lib/import: ebi.ift (new 359), ebi_multi.ift (new 357), genbank.ift (+281 -24), genbank_multi.ift (+281 -24)
westram 2004-08-12 11:58 Rev.: 3058

don't remember where this came from

78 lines of code changed in 1 file:

  • lib/import: bergey.ift (new 78)
westram 2003-12-03 17:11 Rev.: 2245

new filters from jack

284 lines of code changed in 3 files:

  • lib/import: gcg-rsf_pir.ift (new 75), gcg-rsf_transl.ift (new 90), genbank_prot_from_translation_field.ift (new 119)
westram 2003-12-03 17:10 Rev.: 2244

- changes from jack

131 lines of code changed in 3 files:

  • lib/import: fasta.ift (+7 -1), genbank.ift (+62 -9), genbank_multi.ift (+62 -9)
westram 2003-05-06 15:38 Rev.: 1353

* lib/import/*.ift: - commented out DONT_GEN_NAMES
* ad_transpro.cxx: - removed old version of arb_transdna()
* AWTI_import.cxx: - indented

10 lines of code changed in 9 files:

  • lib/import: dnasis.ift (+1 -1), ebi_2002_wl_test_variables.ift (+1 -1), fasta.ift (+1 -1), gcg_seq_only.ift (+1 -1), gde.ift (+1 -1), gde_flat.ift (+1 -1), licor_sequencer.ift (+1 -1), universal_dna.ift (+2 -2), universal_lower_case_dna.ift (+1 -1)
westram 2003-01-24 19:08 Rev.: 1074

removed 'SEQUENCECOLUMN 0' (did nothing)

3 lines of code changed in 13 files:

  • lib/import: dewachter.ift (-1), dnasis.ift (-1), ebi_2002_wl.ift (+1 -2), ebi_2002_wl_test_variables.ift (-1), ebi_netscape.ift (+1 -2), ebi_old.ift (-1), fasta.ift (-1), gcg-rsf.ift (-1), gde_flat.ift (-1), licor_sequencer.ift (-1), licor_wl.ift (-1), licor_wl_new.ift (-1), pir.ift (+1 -2)
westram 2003-01-24 19:07 Rev.: 1073

filters were dangerous (simply skipping all infront of column 10)
now it just removes spaces and digits

10 lines of code changed in 3 files:

  • lib/import: genbank.ift (+4 -3), genbank_multi.ift (+4 -3), rdp.ift (+2 -1)
yadhu 2003-01-24 14:51 Rev.: 1046

*** empty log message ***

2 lines of code changed in 2 files:

  • lib/import: genbank.ift (+1 -1), genbank_multi.ift (+1 -1)
westram 2002-08-23 09:05 Rev.: 863

some user send this filter

86 lines of code changed in 1 file:

  • lib/import: gcg-rsf.ift (new 86)
westram 2002-06-14 18:46 Rev.: 642

some bugfixes for import/export

1 lines of code changed in 1 file:

  • lib/import: fasta.ift (+1 -2)
westram 2002-06-14 12:45 Rev.: 635

fixed needed for XML tree export

3 lines of code changed in 1 file:

  • lib/import: fasta.ift (+3 -2)
westram 2002-02-21 15:30 Rev.: 528

*** empty log message ***

2 lines of code changed in 1 file:

  • lib/import: ebi_2002_wl_test_variables.ift (new 2)

(4 more)

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