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[pkgsrc/trunk]: pkgsrc/parallel/sge Update sge to 6.0 Update 11
details: https://anonhg.NetBSD.org/pkgsrc/rev/820d2b472965
branches: trunk
changeset: 532251:820d2b472965
user: markd <markd%pkgsrc.org@localhost>
date: Wed Aug 15 02:03:05 2007 +0000
description:
Update sge to 6.0 Update 11
Bugs fixed in SGE 6.0u11 since release 6.0u10
--------------------------------------------
scalability issue with qdel and very large array jobs
loadcheck reports on a hyperthreaded CPU only one processor
CSP mode auto installation: certificates are not copied to submit hosts
qmon crashes when displaying about dialog
sge_schedd deadlock upon schedd_job_info job_list being enabled
Qmon has a ticket number limitation
qmon on secondary screen crashes when "Job Control" is pressed
queue status in reporting file is missing.
"Modify"-Button is activated but should be grayed
reporting(5) man page lacks information about sharelog records
Ability to sort queue instances using each column of the queue instances
table
Queue request -q from sge_request can't be overridden through command line
qdel on a job in deleted state does not output any information
qsub -terse to just output job id
qrsh man page doesn't explain which options don't work with interactive jobs
Numbers in error mail too large
still used usersets/project/calendar/pe/checkpoint can be removed under
certain conditions
remove util/sge_log_tee from distribution
shell_start_mode should be documentated to be only used for batch jobs
reserved usage not explained in sge_conf.5
Discrepancy between load values reported by Gridengine and from the
HP-UX 64 bit env.
auto installation option failed to save the install log
function job_get_id_string() is not MT save and used in qmaster
Broken output of job name with 'qsub -N'
meaningless error in clients when reporting_param flush_time is
incorrectly set
remote installation of execd's need enhancement, rework, cleanup
Scheduler does not write pid file in daemonize phase
invalid memory access in cl_com_get_handle
Qconf usage x man page inconsistency
Project man page contains different attribute names.
the binary check in inst_sge is wrong!
Wrong exit code with qconf -sds
qacct -l h=<hostname> dumps core on darwin and linux itanium
inst_sge -m fails for non-root when USER variable is not set
Extraneous space in qsub's "Invalid month specification." message
Hybrid user/project share-tree is broken for user sharing amongst array
jobs
clear usage operation should implicitely trigger refresh in share-tree
dialogue
UNKNOWN group/owner in accouting(5)
qmon's Complex Configuration Load and Save buttons did not work
memory leak in sge_schedd
Bugs fixed in SGE 6.0u10 since release 6.0u9
--------------------------------------------
qdel of just submitted job
can't start qmaster message appears, but qmaster is started
inst_sge script does not add the master host to the shadow_masters file
wrong qlogin_daemon or rlogin_daemon in host conf doesn't set host and
job into error state
reprioritize field in qmon cluster config missing
hostname resolving should not be case sensitive
drmaa_version() function should return 1.0
DRMAA sessions should be persistent
drmaa_control() causes illegal memory access
getDrmaaImplementation() should return the same string as getDrmSystem()
qconf rejects configuration, when attribute value ends with a space
character
during QMaster installation, creation of local database directory fails
on hp11
the execd auto_install takes too long because of long delays after a
parallel install block
Unable to modify Advanced Settings in Configuration for Host in my
cluster using qmon
qacct -l h=<hostname> dump core
shared library name DT_SONAME not set with libdrmaa.so
Berkeley DB backup failed when using hostname with a fully qualified
domain name
the inst_common.sh is missing $SGE_EXECD_PORT
potential security issues in cull library
inst_sge -help wrongly indicates -bup/-rst works with BDB spooling only
qping segfaults in ssl mode
The sge_share_mon utility does not work with the automatic policy enforcement
the auto uninstall execd needs a ssh deamon when the uninstall is done local
accounting records for slave tasks of pe jobs contain invalid submission time
DRMAA 1.0 interface need complete documentation in man pages
qselect matches wrong resources which have been overridden at lower level
qsh does not work if XAUTHORITY is set in root environment
In certain cases jobs may stay in "t" state for 5 minutes
qmaster logging "scheduler tried to remove a incomplete"
ignore_fqdn is broken for the local configuration
host already exists when modifying cluster settings
segmentation fault with empty string
qmaster performance gets throttled if qsub -sync y is used when many
jobs are in the system
sge_conf(5) setting 'max_u_jobs' broken if BDB spooling is used
job control: sorting by different fields
qmon job control: display wider default columns
load formula does not recognize float as weighting factor
qmaster dies when modifying slots value for queue domain when queuename
is missing
spooledit cannot dump USERSET objects
default xterm path in arch_variables script not correct for darwin
architectures
qsh problems on darwin architecture because of wrong crypto lib
execution daemon can crash on Linux where libnss_ldap.so uses BDB 4.2
shared library
Bugs fixed in SGE 6.0u9 since release 6.0u8
-------------------------------------------
CSP mode is affected by OpenSSL Security Advisory [28th September 2006]
account string does not accept the "|" character
unreasonably long scheduler dispatch times if lots of projects are used
in share tree
unreasonably long scheduler dispatch times if lots of cluster queues are
deployed in large clusters
jobs with negative priority will be rejected by qmaster
diffstat:
parallel/sge/Makefile | 23 ++++--------------
parallel/sge/PLIST | 20 +++++++++------
parallel/sge/distinfo | 29 +++++++----------------
parallel/sge/patches/patch-ae | 13 ----------
parallel/sge/patches/patch-af | 15 ------------
parallel/sge/patches/patch-ag | 13 ----------
parallel/sge/patches/patch-ah | 12 ++++----
parallel/sge/patches/patch-ai | 10 ++++---
parallel/sge/patches/patch-aj | 13 ----------
parallel/sge/patches/patch-ak | 12 ++++----
parallel/sge/patches/patch-am | 47 +++++++++++++-------------------------
parallel/sge/patches/patch-ar | 13 ----------
parallel/sge/patches/patch-as | 14 -----------
parallel/sge/patches/patch-bf | 31 -------------------------
parallel/sge/patches/patch-bg | 40 ---------------------------------
parallel/sge/patches/patch-bi | 22 ------------------
parallel/sge/patches/patch-bj | 13 ----------
parallel/sge/patches/patch-bk | 13 ----------
parallel/sge/patches/patch-bl | 52 ++++++++++++++++++------------------------
19 files changed, 83 insertions(+), 322 deletions(-)
diffs (truncated from 678 to 300 lines):
diff -r 088f1fd5f1ea -r 820d2b472965 parallel/sge/Makefile
--- a/parallel/sge/Makefile Wed Aug 15 01:49:02 2007 +0000
+++ b/parallel/sge/Makefile Wed Aug 15 02:03:05 2007 +0000
@@ -1,19 +1,14 @@
-# $NetBSD: Makefile,v 1.25 2007/07/04 20:54:55 jlam Exp $
+# $NetBSD: Makefile,v 1.26 2007/08/15 02:03:05 markd Exp $
#
-PKGNAME= sge-6.0.8
-PKGREVISION= 2
-DISTNAME= sge-V60u8_TAG-src
+PKGNAME= sge-6.0.11
+DISTNAME= sge-V60u11_TAG-src
CATEGORIES= parallel sysutils
-MASTER_SITES= # empty
-#MASTER_SITES= http://gridengine.sunsource.net/files/documents/7/78/
+MASTER_SITES= http://gridengine.sunsource.net/files/documents/7/142/
MAINTAINER= pkgsrc-users%NetBSD.org@localhost
HOMEPAGE= http://gridengine.sunsource.net/
COMMENT= Sun Grid Engine distributed resource management system
-DOWNLOAD= http://gridengine.sunsource.net/servlets/ProjectDocumentList
-
-INTERACTIVE_STAGE= fetch
BUILD_DEPENDS+= {standalone-tcsh,tcsh}-[0-9]*:../../shells/tcsh
@@ -24,18 +19,11 @@
CFLAGS+= -D${UPPER_OPSYS}
CONFIGURE_ENV+= REMOTE=sge
CONFIGURE_ENV+= CFLAGS=${CFLAGS:M*:Q}
-CONFIGURE_ARGS+= --with-grd=${SGE_BUILDARCH:Q}
+CONFIGURE_ARGS+= --with-sge=${SGE_BUILDARCH:Q}
PLIST_SUBST+= SGE_ARCH=${SGE_ARCH:Q}
MESSAGE_SUBST+= SGE_ROOT=${SGE_ROOT}
MAKE_ENV+= PERL5=${PERL5:Q}
-FETCH_MESSAGE= " The file ${DISTNAME}${EXTRACT_SUFX} containing the"
-FETCH_MESSAGE+= " Grid Engine source snapshot must be fetched into:"
-FETCH_MESSAGE+= ""
-FETCH_MESSAGE+= " ${DISTDIR}"
-FETCH_MESSAGE+= " from:"
-FETCH_MESSAGE+= " ${DOWNLOAD}"
-
SGE_USER?= sgeadmin
SGE_GROUP?= sgeadmin
PKG_GROUPS= ${SGE_GROUP}
@@ -60,6 +48,7 @@
UPPER_OPSYS= ${UPPER_OPSYS_cmd:sh}
.if ${OPSYS} == "NetBSD"
+AIMK+= -DFD_SETSIZE=2048
SGE_ARCH= nbsd-${MACHINE_ARCH}
SGE_BUILDARCH_cmd= ${ECHO} "${OPSYS}_${MACHINE_ARCH}" | ${TR} a-z A-Z
.elif ${OPSYS} == "FreeBSD"
diff -r 088f1fd5f1ea -r 820d2b472965 parallel/sge/PLIST
--- a/parallel/sge/PLIST Wed Aug 15 01:49:02 2007 +0000
+++ b/parallel/sge/PLIST Wed Aug 15 02:03:05 2007 +0000
@@ -1,4 +1,4 @@
-@comment $NetBSD: PLIST,v 1.2 2006/10/19 11:51:27 markd Exp $
+@comment $NetBSD: PLIST,v 1.3 2007/08/15 02:03:06 markd Exp $
bin/qacct
bin/qalter
bin/qconf
@@ -89,6 +89,9 @@
sge/catman/cat/cat3/drmaa_get_next_attr_name.3
sge/catman/cat/cat3/drmaa_get_next_attr_value.3
sge/catman/cat/cat3/drmaa_get_next_job_id.3
+sge/catman/cat/cat3/drmaa_get_num_attr_names.3
+sge/catman/cat/cat3/drmaa_get_num_attr_values.3
+sge/catman/cat/cat3/drmaa_get_num_job_ids.3
sge/catman/cat/cat3/drmaa_get_vector_attribute.3
sge/catman/cat/cat3/drmaa_get_vector_attribute_names.3
sge/catman/cat/cat3/drmaa_init.3
@@ -139,6 +142,7 @@
sge/catman/cat/cat5/share_tree.5
sge/catman/cat/cat5/user.5
sge/catman/cat/cat5/usermapping.5
+sge/catman/cat/cat8/SGE_Helper_Service.exe.8
sge/catman/cat/cat8/sge_execd.8
sge/catman/cat/cat8/sge_qmaster.8
sge/catman/cat/cat8/sge_schedd.8
@@ -162,6 +166,7 @@
sge/ckpt/sx6_clean_command
sge/ckpt/sx6_migration_command
sge/ckpt/sx6_restart_command
+sge/doc/README-ARCo.txt
sge/doc/README-Autoinstall.txt
sge/doc/README-DRMAA.txt
sge/doc/arc_depend_irix.asc
@@ -194,6 +199,8 @@
sge/install_qmaster
sge/lib/${SGE_ARCH}/libXltree.so
sge/lib/${SGE_ARCH}/libdrmaa.so
+sge/lib/${SGE_ARCH}/libdrmaa.so.0.95
+sge/lib/${SGE_ARCH}/libdrmaa.so.1.0
sge/lib/${SGE_ARCH}/libspoolb.so
sge/lib/${SGE_ARCH}/libspoolc.so
sge/man/man1/gethostbyaddr.1
@@ -238,6 +245,9 @@
sge/man/man3/drmaa_get_next_attr_name.3
sge/man/man3/drmaa_get_next_attr_value.3
sge/man/man3/drmaa_get_next_job_id.3
+sge/man/man3/drmaa_get_num_attr_names.3
+sge/man/man3/drmaa_get_num_attr_values.3
+sge/man/man3/drmaa_get_num_job_ids.3
sge/man/man3/drmaa_get_vector_attribute.3
sge/man/man3/drmaa_get_vector_attribute_names.3
sge/man/man3/drmaa_init.3
@@ -288,6 +298,7 @@
sge/man/man5/share_tree.5
sge/man/man5/user.5
sge/man/man5/usermapping.5
+sge/man/man8/SGE_Helper_Service.exe.8
sge/man/man8/sge_execd.8
sge/man/man8/sge_qmaster.8
sge/man/man8/sge_schedd.8
@@ -449,7 +460,6 @@
sge/qmon/Qmon
sge/qmon/qmon_help.ad
sge/util/arch
-sge/util/arch.orig
sge/util/arch_variables
sge/util/arch_variables.orig
sge/util/bdb_checkpoint.sh
@@ -540,10 +550,6 @@
sge/util/resources/schemas/qstat/detailed_job_info.xsd
sge/util/resources/schemas/qstat/message.xsd
sge/util/resources/schemas/qstat/qstat.xsd
-sge/util/resources/spooling/disable_history.sql
-sge/util/resources/spooling/history.sh
-sge/util/resources/spooling/init_postgres.sh
-sge/util/resources/spooling/init_postgres.sql
sge/util/resources/starter_methods/settaskid.sh
sge/util/resources/usersets/deadlineusers
sge/util/resources/usersets/defaultdepartment
@@ -553,7 +559,6 @@
sge/util/sgeCA/sge_ssl.cnf
sge/util/sgeCA/sge_ssl_template.cnf
sge/util/sge_aliases
-sge/util/sge_log_tee
sge/util/sge_request
sge/util/sgeremoterun
sge/utilbin/${SGE_ARCH}/adminrun
@@ -595,7 +600,6 @@
@dirrm sge/util/sgeCA
@dirrm sge/util/resources/usersets
@dirrm sge/util/resources/starter_methods
-@dirrm sge/util/resources/spooling
@dirrm sge/util/resources/schemas/qstat
@dirrm sge/util/resources/schemas
@dirrm sge/util/resources/pe
diff -r 088f1fd5f1ea -r 820d2b472965 parallel/sge/distinfo
--- a/parallel/sge/distinfo Wed Aug 15 01:49:02 2007 +0000
+++ b/parallel/sge/distinfo Wed Aug 15 02:03:05 2007 +0000
@@ -1,22 +1,11 @@
-$NetBSD: distinfo,v 1.7 2007/01/25 19:46:55 markd Exp $
+$NetBSD: distinfo,v 1.8 2007/08/15 02:03:06 markd Exp $
-SHA1 (sge-V60u8_TAG-src.tar.gz) = 3efe0f4576ef7bdb527b9b5e0d04850847745f87
-RMD160 (sge-V60u8_TAG-src.tar.gz) = 40e40e157e3ca555195774adbd8f27c1d3f0bcfd
-Size (sge-V60u8_TAG-src.tar.gz) = 10593210 bytes
-SHA1 (patch-ae) = 2827fe4999413aaf833e57ecfa44fd495809e02d
-SHA1 (patch-af) = 6d7ca6c032ae4d5696dd9f94484020577bb4e35b
-SHA1 (patch-ag) = 145ee60e13d00ac8544db645f6c952c047239eb7
-SHA1 (patch-ah) = d0cb695f0a55cfea6625a90d388fac82ab3219af
-SHA1 (patch-ai) = f60b1946ecc594e3467fac16b054182edfc13c34
-SHA1 (patch-aj) = 884096ddfec328284d1c1b603428885b6d43c724
-SHA1 (patch-ak) = a99fb17fd583e8e1cbfab9271f3cb3ebc5797584
-SHA1 (patch-am) = 58c08eda9a5cbe5ed3202fdeeb4e3c28d70e49af
-SHA1 (patch-ar) = e951d7f999af9022911a1f7ee7283cb62e2cf830
-SHA1 (patch-as) = 355eca405440e09b9ecd9e1db4a4727ab408e772
+SHA1 (sge-V60u11_TAG-src.tar.gz) = 65953f0738935234027b51de2e0910dc6901fdc2
+RMD160 (sge-V60u11_TAG-src.tar.gz) = 06747d75dc6c87f710da3e51aaed2404a972e205
+Size (sge-V60u11_TAG-src.tar.gz) = 7509896 bytes
+SHA1 (patch-ah) = a54cb0d2d970e1e7563a6a5d1df73fa6c1751ac3
+SHA1 (patch-ai) = 9ed4476290c659bd1981fbbc67e908ccc7cdfded
+SHA1 (patch-ak) = 24493f9294bebaf41f08830da7b8fb5f1bd48eec
+SHA1 (patch-am) = 9dee10fdf12a6424070daa9109fbdb1a6849777a
SHA1 (patch-at) = d29e29e4915f8015618a4ebc5b17231c2bcc4bf5
-SHA1 (patch-bf) = ecce12bf3c7986c1366e1836d2108bce4ae0fbf8
-SHA1 (patch-bg) = 7e2d950e6ee5a09bbe7e39855f80533aa3db090d
-SHA1 (patch-bi) = e1e383801e288537ae42ea40d24cd9feec136211
-SHA1 (patch-bj) = 46aadeb215c7731664f558732227cefe00492aa2
-SHA1 (patch-bk) = 3471a2b8877c5e7b094810ce8cf71df8ef10a758
-SHA1 (patch-bl) = fbb526f5a63dae2346bdf27a4e8d6d6c90ca8b96
+SHA1 (patch-bl) = 9e0780aeb592810a834316b82a9b16929084f39f
diff -r 088f1fd5f1ea -r 820d2b472965 parallel/sge/patches/patch-ae
--- a/parallel/sge/patches/patch-ae Wed Aug 15 01:49:02 2007 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
@@ -1,13 +0,0 @@
-$NetBSD: patch-ae,v 1.1.1.1 2004/05/03 00:38:34 dmcmahill Exp $
-
---- source/clients/qmon/Makefile.orig 2004-03-03 13:09:34.000000000 +0000
-+++ source/clients/qmon/Makefile
-@@ -135,7 +135,7 @@ messages:
- # rules to build binaries
- ###############################################################################
- qmon: $(QMON_OBJS) $(QMON_ADD_OBJS) $(QMON_LIB_DEPENDS)
-- $(LD_WRAPPER) $(CC) $(LFLAGS) $(XLFLAGS) -o $@ $(QMON_OBJS) $(QMON_ADD_OBJS) $(QMON_ADD_LIBS) $(XLIBS) $(SLIBS) $(LIBS)
-+ $(LD_WRAPPER) $(CC) $(LFLAGS) $(LDFLAGS) $(XLFLAGS) -o $@ $(QMON_OBJS) $(QMON_ADD_OBJS) $(QMON_ADD_LIBS) $(XLIBS) $(SLIBS) $(LIBS)
-
- ############################################################################
- # ListTree Demo prog
diff -r 088f1fd5f1ea -r 820d2b472965 parallel/sge/patches/patch-af
--- a/parallel/sge/patches/patch-af Wed Aug 15 01:49:02 2007 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
@@ -1,15 +0,0 @@
-$NetBSD: patch-af,v 1.2 2006/10/19 11:51:27 markd Exp $
-
---- source/3rdparty/qmon/iconlist/IconList.c.orig 2005-05-03 21:18:02.000000000 +1200
-+++ source/3rdparty/qmon/iconlist/IconList.c
-@@ -50,6 +50,10 @@
- #include <Xm/Traversal.h>
- #endif
-
-+#ifdef LesstifVersion
-+#undef NeedWidePrototypes
-+#endif
-+
- #ifndef SOLARIS
- #if XmVersion >= 2000
- extern void _XmResizeObject(
diff -r 088f1fd5f1ea -r 820d2b472965 parallel/sge/patches/patch-ag
--- a/parallel/sge/patches/patch-ag Wed Aug 15 01:49:02 2007 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
@@ -1,13 +0,0 @@
-$NetBSD: patch-ag,v 1.2 2006/10/19 11:51:27 markd Exp $
-
---- source/3rdparty/qmon/spinbox/Spinbox.c.orig 2005-07-27 23:54:52.000000000 +1200
-+++ source/3rdparty/qmon/spinbox/Spinbox.c
-@@ -1796,7 +1796,7 @@ static Boolean long_get_value (
- {
- #ifdef CRAY
- errno = 0;
--#elif !defined(LINUX) && !defined(SOLARIS) && !defined(DARWIN) && !defined(FREEBSD) && \
-+#elif !defined(LINUX) && !defined(SOLARIS) && !defined(DARWIN) && !defined(FREEBSD) && !defined(NETBSD) && \
- !defined(AIX51) && !defined(AIX43) && !defined(ALPHA) && !defined(HP1164) && !defined(HPUX) && !defined(IRIX)
- int errno = 0;
- #endif
diff -r 088f1fd5f1ea -r 820d2b472965 parallel/sge/patches/patch-ah
--- a/parallel/sge/patches/patch-ah Wed Aug 15 01:49:02 2007 +0000
+++ b/parallel/sge/patches/patch-ah Wed Aug 15 02:03:05 2007 +0000
@@ -1,17 +1,17 @@
-$NetBSD: patch-ah,v 1.2 2006/10/19 11:51:27 markd Exp $
+$NetBSD: patch-ah,v 1.3 2007/08/15 02:03:06 markd Exp $
---- source/aimk.site.orig 2005-11-24 07:14:52.000000000 +1300
+--- source/aimk.site.orig 2007-01-30 22:41:51.000000000 +1300
+++ source/aimk.site
-@@ -54,7 +54,7 @@ setenv TMPDIR /tmp
+@@ -51,7 +51,7 @@ setenv TMPDIR /tmp
# OPENSSL_HOME the directory where the include and lib directory of openssl
# is installed
#
--set OPENSSL_HOME = /vol2/tools/SW/openssl-0.9.7e/$buildarch
+-set OPENSSL_HOME = /vol2/tools/SW/openssl-0.9.7l/$buildarch
+set OPENSSL_HOME = @ssl_prefix@
#
# POSTGRES_HOME the directory where the include and lib directory of
-@@ -66,11 +66,11 @@ set POSTGRES_HOME = /vol2/tools/SW/postg
+@@ -63,11 +63,11 @@ set POSTGRES_HOME = /vol2/tools/SW/postg
# BERKELEYDB_HOME the directory where the include and lib directory of
# Berkeley DB is installed
#
@@ -26,7 +26,7 @@
#
# KRB_HOME the directory where the include and lib directory of kerberos is
-@@ -99,7 +99,7 @@ set SWIG = /vol2/tools/SW/swig-1.3.22/$b
+@@ -96,7 +96,7 @@ set SWIG = /vol2/tools/SW/swig-1.3.22/$b
#
# PERL path
#
diff -r 088f1fd5f1ea -r 820d2b472965 parallel/sge/patches/patch-ai
--- a/parallel/sge/patches/patch-ai Wed Aug 15 01:49:02 2007 +0000
+++ b/parallel/sge/patches/patch-ai Wed Aug 15 02:03:05 2007 +0000
@@ -1,14 +1,16 @@
-$NetBSD: patch-ai,v 1.2 2006/10/19 11:51:27 markd Exp $
+$NetBSD: patch-ai,v 1.3 2007/08/15 02:03:07 markd Exp $
---- source/scripts/distinst.site.orig 2005-09-14 18:56:02.000000000 +1200
+--- source/scripts/distinst.site.orig 2006-12-12 05:25:04.000000000 +1300
+++ source/scripts/distinst.site
-@@ -31,7 +31,7 @@
+@@ -31,9 +31,9 @@
#___INFO__MARK_END__
# Base directory where the openssl binary and libraries reside
--OPENSSLBASE=/vol2/tools/SW/openssl-0.9.7e
+-OPENSSLBASE=/vol2/tools/SW/openssl-0.9.7l
+OPENSSLBASE=@ssl_prefix@
# Base directory where BDB resides
-BERKELEYDBBASE=/vol2/SW/db-4.2.52
+BERKELEYDBBASE=@db4_prefix@
+
+ TAR=gtar
diff -r 088f1fd5f1ea -r 820d2b472965 parallel/sge/patches/patch-aj
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