[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_03252011: (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 , to selected 1.8
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 , to selected 1.8
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 , to selected 1.8
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 , to selected 1.8
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 , to selected 1.8
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 , to selected 1.8
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 , to selected 1.8
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) - [selected]
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 , to selected 1.8
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 , to selected 1.8
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 , to selected 1.8
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 , to selected 1.8
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 , to selected 1.8
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 , to selected 1.8
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
Diff to selected 1.8
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