Description: corrections to man pages
 The WWW home of hmmer (URL) is updated. Also, as we now do not include
 Userguide.pdf in this package, references to that are changed to
 ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf .
 .
 No need to forward this patch as it tackles issues with the way this hmmer version
 is packaged for Debian.
Author: Laszlo Kajan <lkajan@rostlab.org>
Forwarded: no

--- a/00README
+++ b/00README
@@ -14,8 +14,9 @@
 
 
 o Getting HMMER
-   WWW home:       http://hmmer.wustl.edu/
+   WWW home:       http://hmmer.janelia.org/
    Distribution:   ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/
+   User's Guide:   ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf
 
 
 o Installing HMMER
--- a/documentation/man/hmmalign.man
+++ b/documentation/man/hmmalign.man
@@ -129,9 +129,8 @@
 pages: see 
 .B hmmer2(1).
 .PP
-For complete documentation, see the user guide that came with the
-distribution (Userguide.pdf); or see the HMMER web page,
-http://hmmer.wustl.edu/.
+For complete documentation, see the user guide (ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf); or see the HMMER web page,
+http://hmmer.janelia.org/.
 
 .SH COPYRIGHT
 
--- a/documentation/man/hmmbuild.man
+++ b/documentation/man/hmmbuild.man
@@ -438,9 +438,8 @@
 pages: see 
 .B hmmer2(1).
 .PP
-For complete documentation, see the user guide that came with the
-distribution (Userguide.pdf); or see the HMMER web page,
-http://hmmer.wustl.edu/.
+For complete documentation, see the user guide (ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf); or see the HMMER web page,
+http://hmmer.janelia.org/.
 
 .SH COPYRIGHT
 
--- a/documentation/man/hmmcalibrate.man
+++ b/documentation/man/hmmcalibrate.man
@@ -135,9 +135,8 @@
 pages: see 
 .B hmmer2(1).
 .PP
-For complete documentation, see the user guide that came with the
-distribution (Userguide.pdf); or see the HMMER web page,
-http://hmmer.wustl.edu/.
+For complete documentation, see the user guide (ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf); or see the HMMER web page,
+http://hmmer.janelia.org/.
 
 .SH COPYRIGHT
 
--- a/documentation/man/hmmconvert.man
+++ b/documentation/man/hmmconvert.man
@@ -86,9 +86,8 @@
 pages: see 
 .B hmmer2(1).
 .PP
-For complete documentation, see the user guide that came with the
-distribution (Userguide.pdf); or see the HMMER web page,
-http://hmmer.wustl.edu/.
+For complete documentation, see the user guide (ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf); or see the HMMER web page,
+http://hmmer.janelia.org/.
 
 .SH COPYRIGHT
 
--- a/documentation/man/hmmemit.man
+++ b/documentation/man/hmmemit.man
@@ -91,9 +91,8 @@
 pages: see 
 .B hmmer2(1).
 .PP
-For complete documentation, see the user guide that came with the
-distribution (Userguide.pdf); or see the HMMER web page,
-http://hmmer.wustl.edu/.
+For complete documentation, see the user guide (ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf); or see the HMMER web page,
+http://hmmer.janelia.org/.
 
 .SH COPYRIGHT
 
--- a/documentation/man/hmmfetch.man
+++ b/documentation/man/hmmfetch.man
@@ -56,9 +56,8 @@
 pages: see 
 .B hmmer2(1).
 .PP
-For complete documentation, see the user guide that came with the
-distribution (Userguide.pdf); or see the HMMER web page,
-http://hmmer.wustl.edu/.
+For complete documentation, see the user guide (ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf); or see the HMMER web page,
+http://hmmer.janelia.org/.
 
 .SH COPYRIGHT
 
--- a/documentation/man/hmmindex.man
+++ b/documentation/man/hmmindex.man
@@ -37,9 +37,8 @@
 pages: see 
 .B hmmer2(1).
 .PP
-For complete documentation, see the user guide that came with the
-distribution (Userguide.pdf); or see the HMMER web page,
-http://hmmer.wustl.edu/.
+For complete documentation, see the user guide (ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf); or see the HMMER web page,
+http://hmmer.janelia.org/.
 
 .SH COPYRIGHT
 
--- a/documentation/man/hmmpfam.man
+++ b/documentation/man/hmmpfam.man
@@ -282,9 +282,8 @@
 pages: see 
 .B hmmer2(1).
 .PP
-For complete documentation, see the user guide that came with the
-distribution (Userguide.pdf); or see the HMMER web page,
-http://hmmer.wustl.edu/.
+For complete documentation, see the user guide (ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf); or see the HMMER web page,
+http://hmmer.janelia.org/.
 
 .SH COPYRIGHT
 
--- a/documentation/man/hmmsearch.man
+++ b/documentation/man/hmmsearch.man
@@ -249,9 +249,8 @@
 pages: see 
 .B hmmer2(1).
 .PP
-For complete documentation, see the user guide that came with the
-distribution (Userguide.pdf); or see the HMMER web page,
-http://hmmer.wustl.edu/.
+For complete documentation, see the user guide (ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf); or see the HMMER web page,
+http://hmmer.janelia.org/.
 
 .SH COPYRIGHT
 
--- a/INSTALL
+++ b/INSTALL
@@ -3,7 +3,7 @@
 ------------------------------------------
 
 These are quick installation instructions. For complete documentation,
-see the Installation chapter in the HMMER User's Guide (Userguide.pdf).
+see the Installation chapter in the HMMER User's Guide (ftp://selab.janelia.org/pub/software/hmmer/2.3.2/Userguide.pdf).
 
 For a source distribution (hmmer-2.3.2.tar.gz):
 
--- a/documentation/man/hmmer.man
+++ b/documentation/man/hmmer.man
@@ -73,7 +73,7 @@
 with the software distribution, which includes a tutorial introduction
 and more detailed descriptions of the programs.
 
-See http://hmmer.wustl.edu/ for on-line documentation and
+See http://hmmer.janelia.org/ for on-line documentation and
 the current HMMER release.
 
 .PP
--- a/NOTES
+++ b/NOTES
@@ -1,5 +1,5 @@
 HMMER 2.3.2 release notes
-http://hmmer.wustl.edu/
+http://hmmer.janelia.org/
 SRE, Fri Oct  3 14:04:44 2003
 ________________________________________________________________
 
