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Revision 1.47 - (view) (annotate) - [select for diffs]
Tue Jul 7 18:52:50 2009 UTC (7 years, 1 month ago) by amirkarger
Branch: MAIN
CVS Tags: HEAD
Changes since 1.46: +1 -1 lines
Diff to previous 1.46
* Tweak Makefile
* Add change_split_fasta tool (Change.pod, all_params)
* html2scriptome wasn't handling q{} correctly (tidy() broke it)
* Make t/*.pl use dated sample file dir
* Remove unneeded BEGIN from choose_lines_col_more_than_limit

Revision 1.46 - (view) (annotate) - [select for diffs]
Thu Feb 22 17:20:52 2007 UTC (9 years, 6 months ago) by amirkarger
Branch: MAIN
Changes since 1.45: +1 -1 lines
Diff to previous 1.45
Make make prod and web_dev_dir work on Windows

Revision 1.45 - (view) (annotate) - [select for diffs]
Tue Feb 6 15:41:22 2007 UTC (9 years, 6 months ago) by amirkarger
Branch: MAIN
Changes since 1.44: +1 -1 lines
Diff to previous 1.44
Minor tweaks

Revision 1.44 - (view) (annotate) - [select for diffs]
Mon Feb 5 20:35:17 2007 UTC (9 years, 6 months ago) by amirkarger
Branch: MAIN
Changes since 1.43: +1 -1 lines
Diff to previous 1.43
Bug in tidy caused no line breaking at 60 chars in change_tab_to_fasta

Revision 1.43 - (view) (annotate) - [select for diffs]
Mon Jan 15 03:46:44 2007 UTC (9 years, 7 months ago) by amirkarger
Branch: MAIN
Changes since 1.42: +2 -2 lines
Diff to previous 1.42
tweak

Revision 1.42 - (view) (annotate) - [select for diffs]
Fri Jan 12 14:00:44 2007 UTC (9 years, 7 months ago) by amirkarger
Branch: MAIN
Changes since 1.41: +2 -0 lines
Diff to previous 1.41
Added Resources.pod page, which contains Scriptome executables download,
    as well as Mailing List stuff stolen from home page
Added creation of Scriptome_exe.tar.gz to Makefile.
Move around a bunch of stuff on the home page, and tweak the text to
    be maybe a bit more readable
bin/Scriptome: just updated examples in docs

Revision 1.41 - (view) (annotate) - [select for diffs]
Wed Jan 10 20:10:54 2007 UTC (9 years, 7 months ago) by amirkarger
Branch: MAIN
Changes since 1.40: +1 -1 lines
Diff to previous 1.40
Change "Long format" button to clearer "Expand code"

Revision 1.40 - (view) (annotate) - [select for diffs]
Wed Jan 10 01:19:45 2007 UTC (9 years, 7 months ago) by amirkarger
Branch: MAIN
Changes since 1.39: +75 -31 lines
Diff to previous 1.39
Updates for switch from CGR to FAS CSB.

Revision 1.39 - (view) (annotate) - [select for diffs]
Mon Jan 8 22:03:07 2007 UTC (9 years, 7 months ago) by amirkarger
Branch: MAIN
Changes since 1.38: +5 -3 lines
Diff to previous 1.38
Re-uncomment the Long Format button.
Add note in the help page about it.

Revision 1.38 - (view) (annotate) - [select for diffs]
Fri Jan 5 18:12:07 2007 UTC (9 years, 7 months ago) by amirkarger
Branch: MAIN
Changes since 1.37: +3 -1 lines
Diff to previous 1.37
Changes from 8/2006 (and a bit from 1/2007)
Added Information/Tips page
Changes in other files to handle that.
(Stylesheets: increase navbar subject font size)

Revision 1.37 - (view) (annotate) - [select for diffs]
Fri Jul 21 03:37:08 2006 UTC (10 years, 1 month ago) by amirkarger
Branch: MAIN
Branch point for: XML
Changes since 1.36: +5 -8 lines
Diff to previous 1.36
Move toggle_code_format to Scripts.js, then COMMENT IT OUT so we can release

Revision 1.36 - (view) (annotate) - [select for diffs]
Mon Jul 17 14:01:29 2006 UTC (10 years, 1 month ago) by amirkarger
Branch: MAIN
Changes since 1.35: +4 -4 lines
Diff to previous 1.35
Bugfixes and Win fixes

Revision 1.35 - (view) (annotate) - [select for diffs]
Mon Jul 17 13:45:17 2006 UTC (10 years, 1 month ago) by amirkarger
Branch: MAIN
Changes since 1.34: +68 -1 lines
Diff to previous 1.34
Long format for Perl code. Works but not pretty

Revision 1.34 - (view) (annotate) - [select for diffs]
Tue Jul 11 14:16:44 2006 UTC (10 years, 1 month ago) by amirkarger
Branch: MAIN
Changes since 1.33: +3 -1 lines
Diff to previous 1.33
Update the tool on the Help page so that it actually works like a real
Scriptome tool.

Revision 1.33 - (view) (annotate) - [select for diffs]
Thu Jul 6 04:05:10 2006 UTC (10 years, 1 month ago) by amirkarger
Branch: MAIN
Changes since 1.32: +40 -15 lines
Diff to previous 1.32
For "string" or (array) parameter values, don't put the surrounding "" or ()
in the input box - avoid user error/confusion.
Fix some regexp bugs
Die if we see ! followed by a letter (breaks under csh)
This version seems to really work.

Revision 1.32 - (view) (annotate) - [select for diffs]
Thu Jul 6 04:00:00 2006 UTC (10 years, 1 month ago) by amirkarger
Branch: MAIN
Changes since 1.31: +78 -11 lines
Diff to previous 1.31
Create form to edit tool parameters

Revision 1.31 - (view) (annotate) - [select for diffs]
Thu Jul 6 03:58:34 2006 UTC (10 years, 1 month ago) by amirkarger
Branch: MAIN
Changes since 1.30: +81 -7 lines
Diff to previous 1.30
Read in param file and put spans around parameters

Revision 1.30 - (view) (annotate) - [select for diffs]
Wed Mar 8 14:51:45 2006 UTC (10 years, 5 months ago) by amirkarger
Branch: MAIN
CVS Tags: rel-1-1
Changes since 1.29: +1 -1 lines
Diff to previous 1.29
Remove unneeded warn from html2scriptome

Revision 1.29 - (view) (annotate) - [select for diffs]
Fri Feb 17 14:16:37 2006 UTC (10 years, 6 months ago) by amirkarger
Branch: MAIN
Changes since 1.28: +0 -1 lines
Diff to previous 1.28
Oops! A "die" snuck in on line 4.

Revision 1.28 - (view) (annotate) - [select for diffs]
Fri Feb 17 14:12:40 2006 UTC (10 years, 6 months ago) by amirkarger
Branch: MAIN
Changes since 1.27: +5 -3 lines
Diff to previous 1.27
- Replacing " for Windows wasn't handling scripts with two sets of quotes.
- Hack to handle running make on a Windows platform

Revision 1.27 - (view) (annotate) - [select for diffs]
Fri Feb 17 13:39:49 2006 UTC (10 years, 6 months ago) by amirkarger
Branch: MAIN
Changes since 1.26: +6 -5 lines
Diff to previous 1.26
- Change cgr.harvard.edu to www.cgr.harvard.edu
- case-insensitive sort of tool names for quickbrowse
- typo

Revision 1.26 - (view) (annotate) - [select for diffs]
Mon Oct 17 19:36:38 2005 UTC (10 years, 10 months ago) by akarger
Branch: MAIN
CVS Tags: rel-1-0
Branch point for: rel-1-0-patches, rel-1-0-perl-one-liners, rel-1-0-standalone
Changes since 1.25: +8 -0 lines
Diff to previous 1.25
Very ugly hack. pod2html was putting "Platform" explicitly in some links,
so I had to change it to $Platform, i.e., UNIX or Windows

Revision 1.25 - (view) (annotate) - [select for diffs]
Mon Oct 17 05:04:31 2005 UTC (10 years, 10 months ago) by akarger
Branch: MAIN
Changes since 1.24: +30 -25 lines
Diff to previous 1.24
 Make a Platform dir. Everything in there gets copied to
UNIX/Windows (depending on -w flag).
Make navbar subjects a bit different from other buttons (actual links)

Revision 1.24 - (view) (annotate) - [select for diffs]
Sun Oct 16 06:36:52 2005 UTC (10 years, 10 months ago) by akarger
Branch: MAIN
Changes since 1.23: +8 -4 lines
Diff to previous 1.23
Windows toolframes weren't turning green
fix onLoad for home.html

Revision 1.23 - (view) (annotate) - [select for diffs]
Sun Oct 16 06:11:14 2005 UTC (10 years, 10 months ago) by akarger
Branch: MAIN
Changes since 1.22: +24 -20 lines
Diff to previous 1.22
I was calculating root_dir and platform_dir totally wrong
(off by a ../). I THINK we're now correct.
Change Section title (like "Information") to no longer be links in navbar
since there are no index.html pages to link to.
Some '/' problems in links

Revision 1.22 - (view) (annotate) - [select for diffs]
Sun Oct 16 04:57:15 2005 UTC (10 years, 10 months ago) by akarger
Branch: MAIN
Changes since 1.21: +11 -11 lines
Diff to previous 1.21
$Windows -> $Is_Windows
fix (?) darkblue showing up on green pages

Revision 1.21 - (view) (annotate) - [select for diffs]
Fri Oct 14 13:18:51 2005 UTC (10 years, 10 months ago) by akarger
Branch: MAIN
Changes since 1.20: +23 -14 lines
Diff to previous 1.20
Change the way we calculate root_dir, platform_dir, topic
NOT TESTED

Revision 1.20 - (view) (annotate) - [select for diffs]
Wed Sep 28 21:03:03 2005 UTC (10 years, 11 months ago) by akarger
Branch: MAIN
Changes since 1.19: +30 -28 lines
Diff to previous 1.19
Start changing code so that we have everything in Unix/ or Windows/
and identical subdir hierarchies under that. Will be cleaner eventually.
Not done. Need to at least set root_dir correctly.

Revision 1.19 - (view) (annotate) - [select for diffs]
Wed Sep 28 20:32:55 2005 UTC (10 years, 11 months ago) by akarger
Branch: MAIN
Changes since 1.18: +15 -7 lines
Diff to previous 1.18
Information/index.html is now a real link in navbar
Change green to be a bit less blue
A couple hacks to make index.html files get colored (still not working)

Revision 1.18 - (view) (annotate) - [select for diffs]
Wed Sep 28 19:20:24 2005 UTC (10 years, 11 months ago) by akarger
Branch: MAIN
Changes since 1.17: +32 -43 lines
Diff to previous 1.17
Go back to v1.15. We got rid of the multi-tab idea for usability purposes.
We need to make Protocols pages separate for windows, too
Also, suck it up and make an index.html for each section

Revision 1.17 - (view) (annotate) - [select for diffs]
Mon Sep 19 20:52:10 2005 UTC (10 years, 11 months ago) by akarger
Branch: MAIN
Changes since 1.16: +6 -5 lines
Diff to previous 1.16
Don't make a Windows tab for protocols.

Revision 1.16 - (view) (annotate) - [select for diffs]
Thu Sep 8 21:06:42 2005 UTC (10 years, 11 months ago) by akarger
Branch: MAIN
Changes since 1.15: +31 -10 lines
Diff to previous 1.15
Merge Windows & Unix tool onto the same page, with a tab to
decide which type you want for a given tool

Revision 1.15 - (view) (annotate) - [select for diffs]
Thu Sep 1 03:52:40 2005 UTC (11 years ago) by akarger
Branch: MAIN
Changes since 1.14: +5 -3 lines
Diff to previous 1.14
Change a hrefs in TOC to expand/collapse menus

Revision 1.14 - (view) (annotate) - [select for diffs]
Thu Sep 1 01:48:12 2005 UTC (11 years ago) by akarger
Branch: MAIN
Changes since 1.13: +14 -6 lines
Diff to previous 1.13
Blue triangle in front of ALL TOC lines. Automatically collapse submenus

Revision 1.13 - (view) (annotate) - [select for diffs]
Mon Aug 22 19:57:38 2005 UTC (11 years ago) by akarger
Branch: MAIN
Changes since 1.12: +108 -51 lines
Diff to previous 1.12
Make table of contents collapsible

Revision 1.12 - (view) (annotate) - [select for diffs]
Mon Aug 15 15:11:50 2005 UTC (11 years ago) by akarger
Branch: MAIN
Changes since 1.11: +0 -23 lines
Diff to previous 1.11
Move javascript into Scripts.js

Revision 1.11 - (view) (annotate) - [select for diffs]
Mon Aug 15 13:22:04 2005 UTC (11 years ago) by akarger
Branch: MAIN
Changes since 1.10: +14 -14 lines
Diff to previous 1.10
Improve javascript for collapsing menus

Revision 1.10 - (view) (annotate) - [select for diffs]
Mon Aug 15 12:29:17 2005 UTC (11 years ago) by akarger
Branch: MAIN
Changes since 1.9: +39 -34 lines
Diff to previous 1.9
Read TOC into an array so it's easier to play with
Add "var" so IE will work

Revision 1.9 - (view) (annotate) - [select for diffs]
Fri Aug 12 18:58:00 2005 UTC (11 years ago) by akarger
Branch: MAIN
Changes since 1.8: +43 -4 lines
Diff to previous 1.8
First attempt at collapsing menus.
Currently making too many triangles

Revision 1.8 - (view) (annotate) - [select for diffs]
Thu Aug 11 16:22:12 2005 UTC (11 years ago) by akarger
Branch: MAIN
Changes since 1.7: +72 -50 lines
Diff to previous 1.7
Better Site map
make a Windows/Unix distinction for colors & links
Pull variables out of navbar

Revision 1.7 - (view) (annotate) - [select for diffs]
Tue Aug 9 14:51:03 2005 UTC (11 years ago) by akarger
Branch: MAIN
Changes since 1.6: +26 -4 lines
Diff to previous 1.6
Translate tools to Windows Perl!

Revision 1.6 - (view) (annotate) - [select for diffs]
Tue Aug 9 13:25:28 2005 UTC (11 years ago) by akarger
Branch: MAIN
Changes since 1.5: +44 -4 lines
Diff to previous 1.5
Remove \n from toolframes to fix IE copy/paste bug
Make TOC items special
Add Principles, FAQ, Fetch to navbar

Revision 1.5 - (view) (annotate) - [select for diffs]
Thu May 19 13:48:54 2005 UTC (11 years, 3 months ago) by akarger
Branch: MAIN
Changes since 1.4: +9 -3 lines
Diff to previous 1.4
Change Help directory to Information.
Add a Htlp page.
Change ``foo'' from pod2html back into "s

Revision 1.4 - (view) (annotate) - [select for diffs]
Wed May 4 18:07:59 2005 UTC (11 years, 3 months ago) by akarger
Branch: MAIN
Changes since 1.3: +20 -11 lines
Diff to previous 1.3
Cleanup HTML
Fixes for index.html

Revision 1.3 - (view) (annotate) - [select for diffs]
Thu Apr 7 17:05:32 2005 UTC (11 years, 4 months ago) by akarger
Branch: MAIN
Changes since 1.2: +68 -34 lines
Diff to previous 1.2
Correctly (?) handle the fact that website now includes directories
Simplify (?) printing the navbar

Revision 1.2 - (view) (annotate) - [select for diffs]
Wed Mar 30 03:59:32 2005 UTC (11 years, 5 months ago) by akarger
Branch: MAIN
Changes since 1.1: +11 -26 lines
Diff to previous 1.1
Put all 5 major Tool sections into navbar

Revision 1.1 - (view) (annotate) - [select for diffs]
Mon Mar 28 16:22:06 2005 UTC (11 years, 5 months ago) by akarger
Branch: MAIN
First version. Adds header & navbar, converts _RED_ to HTML red-ification.

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