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From: <tw...@us...> - 2002-10-25 01:06:52
|
Update of /cvsroot/genex/genex-server/site/webtools
In directory usw-pr-cvs1:/tmp/cvs-serv6035
Modified Files:
Tag: Rel-1_0_1-branch
makefile config.pl
Log Message:
Fixed for new dirs.
Index: makefile
===================================================================
RCS file: /cvsroot/genex/genex-server/site/webtools/Attic/makefile,v
retrieving revision 1.1.2.1
retrieving revision 1.1.2.2
diff -C2 -d -r1.1.2.1 -r1.1.2.2
*** makefile 24 Oct 2002 18:26:53 -0000 1.1.2.1
--- makefile 24 Oct 2002 19:19:27 -0000 1.1.2.2
***************
*** 1,3 ****
! all: pl_files pm_files html_files htaccess rw_files ssc_files options
NOOP = $(SHELL) -c true
--- 1,3 ----
! all: pl_files pm_files html_files htaccess_src rw_files ssc_files options
NOOP = $(SHELL) -c true
***************
*** 37,41 ****
# so remove the dot from the source file
! htaccess : $(DEST)/.htaccess
$(DEST)/.htaccess : htaccess
@echo "making $<"
--- 37,41 ----
# so remove the dot from the source file
! htaccess_src : $(DEST)/.htaccess
$(DEST)/.htaccess : htaccess
@echo "making $<"
Index: config.pl
===================================================================
RCS file: /cvsroot/genex/genex-server/site/webtools/Attic/config.pl,v
retrieving revision 1.1.2.1
retrieving revision 1.1.2.2
diff -C2 -d -r1.1.2.1 -r1.1.2.2
*** config.pl 24 Oct 2002 18:26:53 -0000 1.1.2.1
--- config.pl 24 Oct 2002 19:19:28 -0000 1.1.2.2
***************
*** 34,38 ****
my $value;
! my $rel_dir = `pwd`;
chomp($rel_dir);
--- 34,38 ----
my $value;
! my $rel_dir = "webtools";
chomp($rel_dir);
***************
*** 46,70 ****
}
! #
! # Clearly, this only runs from subdirectories of genex_server/
! #
! open(IN, "< ../options.reminders");
! while($temp = <IN>)
! {
! chomp($temp);
! if ($temp =~ m/^\#/ || length($temp) == 0)
! {
! next; # ignore comments
! }
! $temp =~ m/(.*?)=(.*)/;
! $key = $1;
! $value = $2;
! $key =~ s/^\s*(.*?)\s*$/$1/; # remove zero or more leading and/or trailing whitespace chars
! $value =~ s/^\s*(.*?)\s*$/$1/; # remove zero or more leading and/or trailing whitespace chars
- $dest{$key} = $value;
- }
- close(IN);
-
if (! exists($dest{HTMLDIR}))
{
--- 46,51 ----
}
! %dest = read_optionsdotreminders();
if (! exists($dest{HTMLDIR}))
{
***************
*** 72,81 ****
}
- #
- # The installation directory is assumed to be relative to the genex web root
- # just as the current working directory (pwd) is relative
- # to the genex-server installation directory.
- #
- $rel_dir =~ s/(.*genex-server)\///;
$rel_dir = "$dest{HTMLDIR}/$dest{GENEX_DIR}/$rel_dir";
--- 53,56 ----
|
|
From: <tw...@us...> - 2002-10-25 01:00:48
|
Update of /cvsroot/genex/genex-server
In directory usw-pr-cvs1:/tmp/cvs-serv18135
Added Files:
Tag: Rel-1_0_1-branch
makefile
Log Message:
New makefile.
install_lib.pl fixed to reflect new directory structure.
--- NEW FILE: makefile ---
all : repository html webtools
# Make a function that will return this, something like
# the install_lib.pl -D elsewhere.
REP = /var/genres
repository :
-mkdir $(REP)
-chown apache:users $(REP)
-chmod 775 $(REP)
html :
cd site; make
webtools:
cd site/webtools; make
|
|
From: <tw...@us...> - 2002-10-24 23:37:29
|
Update of /cvsroot/genex/genex-server/Genex/ExperimentFactors
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/ExperimentFactors
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore ExperimentFactors.pm Makefile.PL column2name
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- ExperimentFactors.pm DELETED ---
--- Makefile.PL DELETED ---
--- column2name DELETED ---
|
|
From: <tw...@us...> - 2002-10-24 23:37:27
|
Update of /cvsroot/genex/genex-server/Genex/ArrayLayout
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/ArrayLayout
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore ArrayLayout.pm Makefile.PL column2name
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- ArrayLayout.pm DELETED ---
--- Makefile.PL DELETED ---
--- column2name DELETED ---
|
|
From: <tw...@us...> - 2002-10-24 23:36:05
|
Update of /cvsroot/genex/genex-server/Genex/AM_Spots_mas5
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/AM_Spots_mas5
Removed Files:
Tag: Rel-1_0_1-branch
AM_Spots_mas5.pm Makefile.PL column2name column2name~
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- AM_Spots_mas5.pm DELETED ---
--- Makefile.PL DELETED ---
--- column2name DELETED ---
--- column2name~ DELETED ---
|
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From: <tw...@us...> - 2002-10-24 23:34:41
|
Update of /cvsroot/genex/genex-server/Genex/BlastHits
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/BlastHits
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore BlastHits.pm Makefile.PL column2name
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- BlastHits.pm DELETED ---
--- Makefile.PL DELETED ---
--- column2name DELETED ---
|
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From: <tw...@us...> - 2002-10-24 23:32:11
|
Update of /cvsroot/genex/genex-server/Genex/GenexAdmin
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/GenexAdmin
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore GenexAdmin.pm Makefile.PL column2name
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- GenexAdmin.pm DELETED ---
--- Makefile.PL DELETED ---
--- column2name DELETED ---
|
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From: <tw...@us...> - 2002-10-24 23:26:20
|
Update of /cvsroot/genex/genex-server/DB/curated_data
In directory usw-pr-cvs1:/tmp/cvs-serv28884/DB/curated_data
Removed Files:
Tag: Rel-1_0_1-branch
contact-collab.xml contact-ncgr.xml contact-noble.xml
contact-sw-sp-sc.xml external_db.xml protocols.xml scanner.xml
software.xml species.xml spotter.xml
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- contact-collab.xml DELETED ---
--- contact-ncgr.xml DELETED ---
--- contact-noble.xml DELETED ---
--- contact-sw-sp-sc.xml DELETED ---
--- external_db.xml DELETED ---
--- protocols.xml DELETED ---
--- scanner.xml DELETED ---
--- software.xml DELETED ---
--- species.xml DELETED ---
--- spotter.xml DELETED ---
|
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From: <tw...@us...> - 2002-10-24 23:21:41
|
Update of /cvsroot/genex/genex-server/Genex/SpotLink
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/SpotLink
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore Makefile.PL SpotLink.pm column2name
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- Makefile.PL DELETED ---
--- SpotLink.pm DELETED ---
--- column2name DELETED ---
|
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From: <tw...@us...> - 2002-10-24 23:13:28
|
Update of /cvsroot/genex/genex-server/rcluster-1.0/bin
In directory usw-pr-cvs1:/tmp/cvs-serv28884/rcluster-1.0/bin
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore Makefile queue_master.in watchdog.in
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- Makefile DELETED ---
--- queue_master.in DELETED ---
--- watchdog.in DELETED ---
|
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From: <tw...@us...> - 2002-10-24 23:10:43
|
Update of /cvsroot/genex/genex-server/Genex/TL_FactorValues
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/TL_FactorValues
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore Makefile.PL TL_FactorValues.pm column2name
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- Makefile.PL DELETED ---
--- TL_FactorValues.pm DELETED ---
--- column2name DELETED ---
|
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From: <tw...@us...> - 2002-10-24 23:09:35
|
Update of /cvsroot/genex/genex-server/Genex/UserSequenceFeature
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/UserSequenceFeature
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore Makefile.PL UserSequenceFeature.pm column2name
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- Makefile.PL DELETED ---
--- UserSequenceFeature.pm DELETED ---
--- column2name DELETED ---
|
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From: <tw...@us...> - 2002-10-24 23:08:26
|
Update of /cvsroot/genex/genex-server/xml2db
In directory usw-pr-cvs1:/tmp/cvs-serv28884/xml2db
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore ChangeLog xml2db.pl.in
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- ChangeLog DELETED ---
--- xml2db.pl.in DELETED ---
|
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From: <tw...@us...> - 2002-10-24 23:04:36
|
Update of /cvsroot/genex/genex-server/Genex/SampleProtocols
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/SampleProtocols
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore Makefile.PL SampleProtocols.pm column2name
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- Makefile.PL DELETED ---
--- SampleProtocols.pm DELETED ---
--- column2name DELETED ---
|
|
From: <tw...@us...> - 2002-10-24 23:02:36
|
Update of /cvsroot/genex/genex-server/Genex/HTMLUtils
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/HTMLUtils
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore HTMLUtils.pm.in Makefile.PL
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- HTMLUtils.pm.in DELETED ---
--- Makefile.PL DELETED ---
|
|
From: <tw...@us...> - 2002-10-24 23:00:49
|
Update of /cvsroot/genex/genex-server/Genex/Spotter
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/Spotter
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore Makefile.PL Spotter.pm column2name
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- Makefile.PL DELETED ---
--- Spotter.pm DELETED ---
--- column2name DELETED ---
|
|
From: <tw...@us...> - 2002-10-24 23:00:13
|
Update of /cvsroot/genex/genex-server/Genex/USF_ExternalDBLink
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/USF_ExternalDBLink
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore Makefile.PL USF_ExternalDBLink.pm column2name
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- Makefile.PL DELETED ---
--- USF_ExternalDBLink.pm DELETED ---
--- column2name DELETED ---
|
Update of /cvsroot/genex/genex-server/Genex/html
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/html
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore AL_Spots.html AM_FactorValues.html AM_Spots.html
AM_SuspectSpots.html ArrayLayout.html ArrayMeasurement.html
BlastHits.html CSF_ExternalDBLink.html
CanonicalSequenceFeature.html Chromosome.html Citation.html
CitationLink.html Contact.html ControlledVocab.html
DBUtils.html ExperimentFactors.html ExperimentSet.html
ExternalDatabase.html Genex.html GroupLink.html GroupSec.html
HTMLUtils.html HotSpots.html Protocol.html RelatedCSF.html
Sample.html SampleProtocols.html Scanner.html Software.html
Species.html SpotLink.html Spotter.html TL_FactorValues.html
TreatmentLevel.html Treatment_AMs.html USF_ExternalDBLink.html
UserCanonicalLink.html UserSec.html UserSequenceFeature.html
XMLUtils.html control-bundle.pl.html
curation-tool-login.pl.html db2xml.pl.html exp_set_tab.gif
index.html tutorial.html
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- AL_Spots.html DELETED ---
--- AM_FactorValues.html DELETED ---
--- AM_Spots.html DELETED ---
--- AM_SuspectSpots.html DELETED ---
--- ArrayLayout.html DELETED ---
--- ArrayMeasurement.html DELETED ---
--- BlastHits.html DELETED ---
--- CSF_ExternalDBLink.html DELETED ---
--- CanonicalSequenceFeature.html DELETED ---
--- Chromosome.html DELETED ---
--- Citation.html DELETED ---
--- CitationLink.html DELETED ---
--- Contact.html DELETED ---
--- ControlledVocab.html DELETED ---
--- DBUtils.html DELETED ---
--- ExperimentFactors.html DELETED ---
--- ExperimentSet.html DELETED ---
--- ExternalDatabase.html DELETED ---
--- Genex.html DELETED ---
--- GroupLink.html DELETED ---
--- GroupSec.html DELETED ---
--- HTMLUtils.html DELETED ---
--- HotSpots.html DELETED ---
--- Protocol.html DELETED ---
--- RelatedCSF.html DELETED ---
--- Sample.html DELETED ---
--- SampleProtocols.html DELETED ---
--- Scanner.html DELETED ---
--- Software.html DELETED ---
--- Species.html DELETED ---
--- SpotLink.html DELETED ---
--- Spotter.html DELETED ---
--- TL_FactorValues.html DELETED ---
--- TreatmentLevel.html DELETED ---
--- Treatment_AMs.html DELETED ---
--- USF_ExternalDBLink.html DELETED ---
--- UserCanonicalLink.html DELETED ---
--- UserSec.html DELETED ---
--- UserSequenceFeature.html DELETED ---
--- XMLUtils.html DELETED ---
--- control-bundle.pl.html DELETED ---
--- curation-tool-login.pl.html DELETED ---
--- db2xml.pl.html DELETED ---
--- exp_set_tab.gif DELETED ---
--- index.html DELETED ---
--- tutorial.html DELETED ---
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From: <tw...@us...> - 2002-10-24 23:00:05
|
Update of /cvsroot/genex/genex-server/Genex/AM_SuspectSpots
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/AM_SuspectSpots
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore AM_SuspectSpots.pm Makefile.PL column2name
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- AM_SuspectSpots.pm DELETED ---
--- Makefile.PL DELETED ---
--- column2name DELETED ---
|
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From: <tw...@us...> - 2002-10-24 22:59:51
|
Update of /cvsroot/genex/genex-server/Genex/Fkey
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/Fkey
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore Fkey.pm Makefile.PL
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- Fkey.pm DELETED ---
--- Makefile.PL DELETED ---
|
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From: <tw...@us...> - 2002-10-24 22:59:32
|
Update of /cvsroot/genex/genex-server/Genex/TreatmentLevel
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/TreatmentLevel
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore Makefile.PL TreatmentLevel.pm column2name
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- Makefile.PL DELETED ---
--- TreatmentLevel.pm DELETED ---
--- column2name DELETED ---
|
Update of /cvsroot/genex/genex-server/graphics
In directory usw-pr-cvs1:/tmp/cvs-serv28884/graphics
Removed Files:
Tag: Rel-1_0_1-branch
Fig2.gif ab_blue.gif analysis_tool.jpg apache_pb.gif
background.jpg cleargif.gif cn_blue.gif combo.gif
combo_half.gif curation_tool.jpg cybert.jpg databaseserver.jpg
experimentset_a.jpg experimentset_a.pdf experimentset_b.jpg
experimentset_b.pdf fade.gif fall2.gif fall2_sm.gif genex.gif
genex_link.gif genexlittlelogo.jpg genexlogo.jpg hm_blue.gif
introduction.jpg littlepages.jpg ncgr_red.gif ncgrbanner.gif
ncgrbar.gif ncgrbar2.gif ncgrcubeslong.gif ncgrlogored.gif
ncgrtier2.jpg pdfsmall.gif rcluster.jpg rot.gif rot3.gif
rs_blue.gif rs_gray.gif sm_blue.gif sr_blue.gif sw_blue.gif
x.jpg
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- Fig2.gif DELETED ---
--- ab_blue.gif DELETED ---
--- analysis_tool.jpg DELETED ---
--- apache_pb.gif DELETED ---
--- background.jpg DELETED ---
--- cleargif.gif DELETED ---
--- cn_blue.gif DELETED ---
--- combo.gif DELETED ---
--- combo_half.gif DELETED ---
--- curation_tool.jpg DELETED ---
--- cybert.jpg DELETED ---
--- databaseserver.jpg DELETED ---
--- experimentset_a.jpg DELETED ---
--- experimentset_a.pdf DELETED ---
--- experimentset_b.jpg DELETED ---
--- experimentset_b.pdf DELETED ---
--- fade.gif DELETED ---
--- fall2.gif DELETED ---
--- fall2_sm.gif DELETED ---
--- genex.gif DELETED ---
--- genex_link.gif DELETED ---
--- genexlittlelogo.jpg DELETED ---
--- genexlogo.jpg DELETED ---
--- hm_blue.gif DELETED ---
--- introduction.jpg DELETED ---
--- littlepages.jpg DELETED ---
--- ncgr_red.gif DELETED ---
--- ncgrbanner.gif DELETED ---
--- ncgrbar.gif DELETED ---
--- ncgrbar2.gif DELETED ---
--- ncgrcubeslong.gif DELETED ---
--- ncgrlogored.gif DELETED ---
--- ncgrtier2.jpg DELETED ---
--- pdfsmall.gif DELETED ---
--- rcluster.jpg DELETED ---
--- rot.gif DELETED ---
--- rot3.gif DELETED ---
--- rs_blue.gif DELETED ---
--- rs_gray.gif DELETED ---
--- sm_blue.gif DELETED ---
--- sr_blue.gif DELETED ---
--- sw_blue.gif DELETED ---
--- x.jpg DELETED ---
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From: <tw...@us...> - 2002-10-24 22:53:43
|
Update of /cvsroot/genex/genex-server/Genex/GroupSec
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/GroupSec
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore GroupSec.pm Makefile.PL column2name
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- GroupSec.pm DELETED ---
--- Makefile.PL DELETED ---
--- column2name DELETED ---
|
Update of /cvsroot/genex/genex-server/top_level
In directory usw-pr-cvs1:/tmp/cvs-serv28884/top_level
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore analysis_tools.shtml.in background.shtml.in
curation_tool.shtml genex_contact.shtml genex_info.shtml.in
index.shtml.in
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- analysis_tools.shtml.in DELETED ---
--- background.shtml.in DELETED ---
--- curation_tool.shtml DELETED ---
--- genex_contact.shtml DELETED ---
--- genex_info.shtml.in DELETED ---
--- index.shtml.in DELETED ---
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From: <tw...@us...> - 2002-10-24 22:40:12
|
Update of /cvsroot/genex/genex-server/Genex/DBUtils
In directory usw-pr-cvs1:/tmp/cvs-serv28884/Genex/DBUtils
Removed Files:
Tag: Rel-1_0_1-branch
.cvsignore DBUtils.pm.in Makefile.PL
Log Message:
Now that the unused files are archived, I'm deleting the files.
--- .cvsignore DELETED ---
--- DBUtils.pm.in DELETED ---
--- Makefile.PL DELETED ---
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