[Bio] / FigKernelPackages / gjoalignandtree.pm Repository:
ViewVC logotype

Log of /FigKernelPackages/gjoalignandtree.pm

Parent Directory Parent Directory


Links to HEAD: (view) (download) (as text) (annotate)
Links to mgrast_dev_08022011: (view) (download) (as text) (annotate)
Sticky Tag:

Revision 1.16 - (view) (download) (as text) (annotate) - [select for diffs]
Sat Feb 19 17:51:25 2011 UTC (9 years, 1 month ago) by golsen
Branch: MAIN
CVS Tags: mgrast_dev_02212011, mgrast_dev_02222011, mgrast_dev_03252011, mgrast_dev_03312011, mgrast_dev_04012011, mgrast_dev_04052011, mgrast_dev_04082011, mgrast_dev_04132011, mgrast_dev_05262011, mgrast_dev_06072011, mgrast_dev_08022011, mgrast_dev_08112011, mgrast_release_3_0, mgrast_release_3_0_1, mgrast_release_3_0_2, mgrast_release_3_0_3, mgrast_release_3_0_4, mgrast_release_3_1_0, mgrast_release_3_1_1, myrast_33, myrast_rel40
Changes since 1.15: +4 -3 lines
Diff to previous 1.15
Minor consistency improvements in options, and remove redundancy in getting
the query (write to file, then read from the file).

Revision 1.15 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Feb 16 22:42:49 2011 UTC (9 years, 1 month ago) by fangfang
Branch: MAIN
Changes since 1.14: +6 -4 lines
Diff to previous 1.14
more flexibility for option n_thread in extract_with_psiblast

Revision 1.14 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Dec 29 22:24:17 2010 UTC (9 years, 3 months ago) by fangfang
Branch: MAIN
CVS Tags: rast_rel_2011_0119
Changes since 1.13: +5 -6 lines
Diff to previous 1.13
update options

Revision 1.13 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Dec 29 21:50:32 2010 UTC (9 years, 3 months ago) by fangfang
Branch: MAIN
Changes since 1.12: +16 -4 lines
Diff to previous 1.12
update the report hash extract_with_psiblast returns

Revision 1.12 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Dec 27 00:17:33 2010 UTC (9 years, 3 months ago) by fangfang
Branch: MAIN
Changes since 1.11: +1 -1 lines
Diff to previous 1.11
update

Revision 1.11 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Dec 27 00:04:35 2010 UTC (9 years, 3 months ago) by fangfang
Branch: MAIN
Changes since 1.10: +8 -7 lines
Diff to previous 1.10
update default options

Revision 1.10 - (view) (download) (as text) (annotate) - [select for diffs]
Sun Dec 26 21:48:56 2010 UTC (9 years, 3 months ago) by fangfang
Branch: MAIN
Changes since 1.9: +12 -6 lines
Diff to previous 1.9
add options for min fraction coverage for extract_with_psiblast

Revision 1.9 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Dec 7 00:36:46 2010 UTC (9 years, 3 months ago) by golsen
Branch: MAIN
Changes since 1.8: +10 -2 lines
Diff to previous 1.8
Cleaner handling of external binary programs.

Revision 1.8 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Dec 6 19:55:51 2010 UTC (9 years, 3 months ago) by golsen
Branch: MAIN
Changes since 1.7: +303 -33 lines
Diff to previous 1.7
Many minor changes and improvements.
Major improvements in blastpgpn().

Revision 1.7 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Nov 18 22:39:56 2010 UTC (9 years, 4 months ago) by fangfang
Branch: MAIN
CVS Tags: rast_rel_2010_1206
Changes since 1.6: +1 -1 lines
Diff to previous 1.6
change to verify_db

Revision 1.6 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Nov 11 06:34:10 2010 UTC (9 years, 4 months ago) by fangfang
Branch: MAIN
Changes since 1.5: +2 -2 lines
Diff to previous 1.5
correct arg sequence in extract_with_psiblast

Revision 1.5 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Nov 8 20:26:00 2010 UTC (9 years, 4 months ago) by fangfang
Branch: MAIN
Changes since 1.4: +14 -11 lines
Diff to previous 1.4
add fract_cov option for trim_align_to_median_ends

Revision 1.4 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Nov 8 19:49:39 2010 UTC (9 years, 4 months ago) by fangfang
Branch: MAIN
Changes since 1.3: +1 -0 lines
Diff to previous 1.3
handle the case in which all candidates have either start or end gaps in representative_for_profile

Revision 1.3 - (view) (download) (as text) (annotate) - [select for diffs]
Sat Aug 21 17:43:32 2010 UTC (9 years, 7 months ago) by golsen
Branch: MAIN
CVS Tags: rast_rel_2010_0827, rast_rel_2010_0928
Changes since 1.2: +321 -45 lines
Diff to previous 1.2
Updates and bug fixes.

Revision 1.2 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Apr 12 20:27:23 2010 UTC (9 years, 11 months ago) by fangfang
Branch: MAIN
CVS Tags: rast_rel_2010_0526
Changes since 1.1: +1 -0 lines
Diff to previous 1.1
fixed a small bug in representative_for_profile()

Revision 1.1 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Mar 8 21:43:51 2010 UTC (10 years ago) by overbeek
Branch: MAIN
support for alignments and trees

This form allows you to request diffs between any two revisions of this file. For each of the two "sides" of the diff, select a symbolic revision name using the selection box, or choose 'Use Text Field' and enter a numeric revision.

  Diffs between and
  Type of Diff should be a

Sort log by:

MCS Webmaster
ViewVC Help
Powered by ViewVC 1.0.3