ports/98570: [maintainer-update] biology/ncbi-toolkit 2006.05.07 (BLAST v2.2.14)

[Fernan Aguero]

>Number:         98570
>Category:       ports
>Synopsis:       [maintainer-update] biology/ncbi-toolkit 2006.05.07 (BLAST v2.2.14)
>Confidential:   no
>Severity:       non-critical
>Priority:       low
>Responsible:    freebsd-ports-bugs
>State:          open
>Quarter:        
>Keywords:       
>Date-Required:
>Class:          maintainer-update
>Submitter-Id:   current-users
>Arrival-Date:   Tue Jun 06 01:30:19 GMT 2006
>Closed-Date:
>Last-Modified:
>Originator:     Fernan Aguero
>Release:        FreeBSD 6.0-RELEASE-p4 i386
>Organization:
IIB-UNSAM
>Environment:

System: FreeBSD omega.iib.unsam.edu.ar 6.0-RELEASE-p4 FreeBSD 6.0-RELEASE-p4 #0: Wed Jan 25 12:43:39 ART 2006 fernan at omega.iib.unsam.edu.ar:/usr/obj/usr/src/sys/OMEGA i386

	
>Description:
	

	Update biology/ncbi-toolkit to the latest release.

	Quoting from www.ncbi.nlm.nih.gov/blast/blast_whatsnew.shtml

	Major changes include:

	*	blastall now uses the new engine by default, resulting
		in significant performance improvements and enabling
		query concatenation for all program types.
		
	*	The Mac OS X build is now a universal binary.
	
	*	Multithreaded searches now work properly under
		ia32-win32.

	*	The sparc64-solaris build now requries Solaris 10.
		Support for axp64-tru64 will be discontinued.

	Pav was the committer of the last update to this port, so he
	gets the carbon copy :)

	And Tony Maher (the previous maintainer) also gets a CC,
	because he requested the update. Wellcome back!
	
>How-To-Repeat:
	
	
>Fix:

	



--- ncbi-toolkit.diff begins here ---
diff -ruN /usr/ports/biology/ncbi-toolkit/Makefile ncbi-toolkit/Makefile
--- /usr/ports/biology/ncbi-toolkit/Makefile	Sun Jan 15 12:12:51 2006
+++ ncbi-toolkit/Makefile	Mon Jun  5 11:18:21 2006
@@ -7,7 +7,7 @@
 #
 
 PORTNAME=	ncbi-toolkit
-PORTVERSION=	2005.12.06
+PORTVERSION=	2006.05.07	# containing BLAST v2.2.14
 CATEGORIES=	biology
 MASTER_SITES=	ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools/old/${PORTVERSION:S/.//g}/
 DISTNAME=	ncbi
diff -ruN /usr/ports/biology/ncbi-toolkit/distinfo ncbi-toolkit/distinfo
--- /usr/ports/biology/ncbi-toolkit/distinfo	Sun Jan 15 12:12:51 2006
+++ ncbi-toolkit/distinfo	Mon Jun  5 09:26:44 2006
@@ -1,3 +1,3 @@
-MD5 (ncbi-toolkit-2005.12.06/ncbi.tar.gz) = 50a83a509b67fd8f317b0da42703de1d
-SHA256 (ncbi-toolkit-2005.12.06/ncbi.tar.gz) = 0b409557d6601b8703328cd1ae997985677416e9ad9375e57b298113ecaaeeda
-SIZE (ncbi-toolkit-2005.12.06/ncbi.tar.gz) = 14693833
+MD5 (ncbi-toolkit-2006.05.07/ncbi.tar.gz) = 1c00462385fbf382c99ff65f34c0d09a
+SHA256 (ncbi-toolkit-2006.05.07/ncbi.tar.gz) = b3cac971d552b2ad86ee7d82e77e6a425b98b33a7b6f1c77062aff133e34d129
+SIZE (ncbi-toolkit-2006.05.07/ncbi.tar.gz) = 15396356
diff -ruN /usr/ports/biology/ncbi-toolkit/pkg-plist ncbi-toolkit/pkg-plist
--- /usr/ports/biology/ncbi-toolkit/pkg-plist	Wed Jan 25 11:31:48 2006
+++ ncbi-toolkit/pkg-plist	Mon Jun  5 11:04:37 2006
@@ -58,7 +58,9 @@
 include/ncbi/connect/ncbi_host_info.h
 include/ncbi/connect/ncbi_host_infop.h
 include/ncbi/connect/ncbi_http_connector.h
+include/ncbi/connect/ncbi_lb.h
 include/ncbi/connect/ncbi_lbsmd.h
+include/ncbi/connect/ncbi_local.h
 include/ncbi/connect/ncbi_memory_connector.h
 include/ncbi/connect/ncbi_priv.h
 include/ncbi/connect/ncbi_sendmail.h
@@ -438,6 +440,7 @@
 include/ncbi/seqsub.h
 include/ncbi/sequtil.h
 include/ncbi/shim3d.h
+include/ncbi/showalignwrap.h
 include/ncbi/simple.h
 include/ncbi/simutil.h
 include/ncbi/smith_waterman.h
@@ -485,6 +488,7 @@
 include/ncbi/udviewer.h
 include/ncbi/udvseq.h
 include/ncbi/undefwin.h
+include/ncbi/unified_pvalues.h
 include/ncbi/urkbias.h
 include/ncbi/urkcnsrt.h
 include/ncbi/urkdust.h
@@ -619,7 +623,6 @@
 %%PORTDOCS%%%%DOCSDIR%%/man/Nentrez.1
 %%PORTDOCS%%%%DOCSDIR%%/man/Psequin.1
 %%PORTDOCS%%%%DOCSDIR%%/man/asn2asn.1
-
 %%PORTDOCS%%%%DOCSDIR%%/man/asn2gb.1
 %%PORTDOCS%%%%DOCSDIR%%/man/asn2xml.1
 %%PORTDOCS%%%%DOCSDIR%%/man/asndhuff.1
@@ -699,6 +702,9 @@
 %%PORTDOCS%%%%DOCSDIR%%/seq_install/win-netscape.css
 %%PORTDOCS%%%%DOCSDIR%%/sequin.htm
 %%PORTDOCS%%%%DOCSDIR%%/tbl2asn.txt
+%%DATADIR%%/16Score.nhr
+%%DATADIR%%/16Score.nin
+%%DATADIR%%/16Score.nsq
 %%DATADIR%%/BLOSUM45
 %%DATADIR%%/BLOSUM62
 %%DATADIR%%/BLOSUM80
--- ncbi-toolkit.diff ends here ---

>Release-Note:
>Audit-Trail:
>Unformatted: