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-rw-r--r--bin/Makefile.am57
-rwxr-xr-xbin/batch/ctest.qsub.in.cmake21
-rw-r--r--bin/batch/ctestP.lsf.in.cmake19
-rw-r--r--bin/batch/ctestP.sl.in.cmake14
-rw-r--r--bin/batch/ctestS.lsf.in.cmake18
-rw-r--r--bin/batch/ctestS.sl.in.cmake15
-rw-r--r--bin/batch/knl_H5detect.sl.in.cmake20
-rw-r--r--bin/batch/knl_ctestP.sl.in.cmake16
-rw-r--r--bin/batch/knl_ctestS.sl.in.cmake17
-rw-r--r--bin/batch/ray_ctestP.lsf.in.cmake20
-rw-r--r--bin/batch/ray_ctestS.lsf.in.cmake18
-rwxr-xr-xbin/batch/raybsub7
-rwxr-xr-xbin/checkposix244
-rwxr-xr-xbin/genparser2
-rw-r--r--bin/h5cc.in399
-rw-r--r--bin/h5redeploy.in216
-rwxr-xr-xbin/h5vers6
-rwxr-xr-xbin/make_vers4
-rwxr-xr-xbin/makehelp1
-rwxr-xr-xbin/release110
-rwxr-xr-xbin/snapshot21
-rwxr-xr-xbin/trace34
-rwxr-xr-xbin/warnhist511
23 files changed, 1681 insertions, 109 deletions
diff --git a/bin/Makefile.am b/bin/Makefile.am
new file mode 100644
index 0000000..a39b695
--- /dev/null
+++ b/bin/Makefile.am
@@ -0,0 +1,57 @@
+#
+# Copyright by The HDF Group.
+# Copyright by the Board of Trustees of the University of Illinois.
+# All rights reserved.
+#
+# This file is part of HDF5. The full HDF5 copyright notice, including
+# terms governing use, modification, and redistribution, is contained in
+# the COPYING file, which can be found at the root of the source code
+# distribution tree, or in https://support.hdfgroup.org/ftp/HDF5/releases.
+# If you do not have access to either file, you may request a copy from
+# help@hdfgroup.org.
+##
+## Makefile.am
+## Run automake to generate a Makefile.in from this file.
+#
+# HDF5 Library Makefile(.in)
+#
+
+include $(top_srcdir)/config/commence.am
+
+# Include src directory
+AM_CPPFLAGS+=-I$(top_srcdir)/src -I$(top_srcdir)/tools/lib
+
+# These are our main targets
+bin_SCRIPTS=h5redeploy
+
+# Tell automake to clean h5redeploy script
+CLEANFILES=h5redeploy
+
+# These were generated by configure. Remove them only when distclean.
+DISTCLEANFILES=h5cc
+
+# All programs rely on hdf5 library and h5tools library
+LDADD=$(LIBH5TOOLS) $(LIBHDF5)
+
+# How to build h5redeploy script
+h5redeploy: h5redeploy.in
+ @cp $(srcdir)/$@.in $@
+
+# h5cc needs custom install and uninstall rules, since it may be
+# named h5pcc if hdf5 is being built in parallel mode.
+if BUILD_PARALLEL_CONDITIONAL
+ H5CC_NAME=h5pcc
+else
+ H5CC_NAME=h5cc
+endif
+
+$(DESTDIR)$(bindir):
+ echo " $(MKDIR_P) '$(DESTDIR)$(bindir)'"; \
+ $(MKDIR_P) "$(DESTDIR)$(bindir)" || exit 1;
+
+install-exec-local: $(DESTDIR)$(bindir)
+ @$(INSTALL) h5cc $(DESTDIR)$(bindir)/$(H5CC_NAME)
+uninstall-local:
+ @$(RM) $(DESTDIR)$(bindir)/$(H5CC_NAME)
+
+include $(top_srcdir)/config/conclude.am
diff --git a/bin/batch/ctest.qsub.in.cmake b/bin/batch/ctest.qsub.in.cmake
new file mode 100755
index 0000000..702fca7
--- /dev/null
+++ b/bin/batch/ctest.qsub.in.cmake
@@ -0,0 +1,21 @@
+#!/bin/bash -l
+if [ $# -gt 0 ]; then
+ SUMMARY_FILE=$1
+fi
+ACCOUNT_ID=@ACCOUNT_ID@
+
+echo "Run parallel test command. Test output will be in build/${SUMMARY_FILE}"
+CTEST_CMD=`which ctest`
+
+#SKIPTESTS <<KEYWORD:script inserts list of skips tests here -- don't remove>>
+
+cd @HDF5_BINARY_DIR@
+if [[ $SUMMARY_FILE == *"ctestS"* ]]; then
+ CMD="${CTEST_CMD} . -E MPI_TEST_ -C Release -j 32 -T test"
+else
+ CMD="${CTEST_CMD} . -R MPI_TEST_ ${SKIP_TESTS} -C Release -T test"
+fi
+
+qsub -t 60 -n 1 -q debug-flat-quad -A ${ACCOUNT_ID} ${CMD} >& ${SUMMARY_FILE}
+
+echo "Done running ctest parallel command."
diff --git a/bin/batch/ctestP.lsf.in.cmake b/bin/batch/ctestP.lsf.in.cmake
new file mode 100644
index 0000000..3fdd5ce
--- /dev/null
+++ b/bin/batch/ctestP.lsf.in.cmake
@@ -0,0 +1,19 @@
+#!/bin/tcsh
+### LSF syntax
+#BSUB -nnodes 1 #number of nodes
+#BSUB -W 30 #walltime in minutes
+#BSUB -G guests #account
+#BSUB -e ctestPerrors.txt #stderr
+#BSUB -o ctestPoutput.txt #stdout
+#BSUB -J hdf5_ctestP #job
+##BSUB -q pbatch #queue to use
+#BSUB -q pdebug
+
+##date; hostname
+##echo -n 'JobID is '; echo $LSB_JOBID
+
+cd @HDF5_BINARY_DIR@
+echo "Run parallel test command. Test output will be in build/ctestP.out"
+ctest . -R MPI_TEST_ -C Release -T test >& ctestP.out
+
+echo "Done running ctest parallel command."
diff --git a/bin/batch/ctestP.sl.in.cmake b/bin/batch/ctestP.sl.in.cmake
new file mode 100644
index 0000000..6399de7
--- /dev/null
+++ b/bin/batch/ctestP.sl.in.cmake
@@ -0,0 +1,14 @@
+#!/bin/bash
+
+#SBATCH --nodes=1
+#SBATCH -t 00:30:00
+#SBATCH --mail-type=BEGIN,END,FAIL
+##SBATCH --mail-user=<username>@sandia.gov
+#SBATCH --export=ALL
+#SBATCH --job-name=h5_ctestP
+
+cd @HDF5_BINARY_DIR@
+ctest . -R MPI_TEST_ -C Release -T test >& ctestP.out
+
+echo "Done running ctestP.sl"
+
diff --git a/bin/batch/ctestS.lsf.in.cmake b/bin/batch/ctestS.lsf.in.cmake
new file mode 100644
index 0000000..a01d39b
--- /dev/null
+++ b/bin/batch/ctestS.lsf.in.cmake
@@ -0,0 +1,18 @@
+#!/bin/tcsh
+### LSF syntax
+#BSUB -nnodes 1 #number of nodes
+#BSUB -W 29 #walltime in minutes
+#BSUB -G guests #account
+#BSUB -e ctestSerrors.txt #stderr
+#BSUB -o ctestSoutput.txt #stdout
+#BSUB -J hdf5_ctestS #job
+##BSUB -q pbatch #queue to use
+#BSUB -q pdebug
+
+cd @HDF5_BINARY_DIR@
+echo "Run command. Test output will be in build/ctestS.out"
+ctest . -E MPI_TEST_ -C Release -j 32 -T test >& ctestS.out
+
+##$CMD >& ctestS.out
+echo "Done running command."
+
diff --git a/bin/batch/ctestS.sl.in.cmake b/bin/batch/ctestS.sl.in.cmake
new file mode 100644
index 0000000..4f96bb9
--- /dev/null
+++ b/bin/batch/ctestS.sl.in.cmake
@@ -0,0 +1,15 @@
+#!/bin/bash
+
+#SBATCH --nodes=1
+#SBATCH -t 00:30:00
+#SBATCH --mail-type=BEGIN,END,FAIL
+##SBATCH --mail-user=<username>@sandia.gov
+#SBATCH --export=ALL
+#SBATCH --job-name=h5_ctestS
+
+cd @HDF5_BINARY_DIR@
+CMD="ctest . -E MPI_TEST_ -C Release -j 32 -T test"
+
+echo "Run $CMD. Test output will be in build/ctestS.out"
+$CMD >& ctestS.out
+echo "Done running $CMD"
diff --git a/bin/batch/knl_H5detect.sl.in.cmake b/bin/batch/knl_H5detect.sl.in.cmake
new file mode 100644
index 0000000..39a3ef3
--- /dev/null
+++ b/bin/batch/knl_H5detect.sl.in.cmake
@@ -0,0 +1,20 @@
+#!/bin/bash
+
+#SBATCH -p knl -C quad
+#SBATCH --nodes=1
+#SBATCH -t 00:10:00
+#SBATCH --mail-type=BEGIN,END,FAIL
+#SBATCH --mail-user=<username>@sandia.gov
+#SBATCH --export=ALL
+#SBATCH --job-name=knl_h5detect
+
+
+# Inputs: Build directory, output file name, executable file name (username/email if available).
+PROGNAME=H5detect
+OUTPUT=H5Tinit.c
+
+CMD="@HDF5_BINARY_DIR@/bin/${PROGNAME} @HDF5_GENERATED_SOURCE_DIR@/${OUTPUT}"
+echo "Run $CMD"
+srun -n 1 $CMD
+echo "Done running $CMD"
+
diff --git a/bin/batch/knl_ctestP.sl.in.cmake b/bin/batch/knl_ctestP.sl.in.cmake
new file mode 100644
index 0000000..f985fbb
--- /dev/null
+++ b/bin/batch/knl_ctestP.sl.in.cmake
@@ -0,0 +1,16 @@
+#!/bin/bash
+
+#SBATCH -p knl -C quad,cache
+#SBATCH --nodes=1
+#SBATCH -t 00:30:00
+#SBATCH --mail-type=BEGIN,END,FAIL
+##SBATCH --mail-user=<username>@sandia.gov
+#SBATCH --export=ALL
+#SBATCH --job-name=h5_ctestP
+
+cd @HDF5_BINARY_DIR@
+#run parallel tests except t_cache_image test
+ctest . -R MPI_TEST_ -C Release -T test >& ctestP.out
+
+echo "Done running $CMD"
+
diff --git a/bin/batch/knl_ctestS.sl.in.cmake b/bin/batch/knl_ctestS.sl.in.cmake
new file mode 100644
index 0000000..af6353b
--- /dev/null
+++ b/bin/batch/knl_ctestS.sl.in.cmake
@@ -0,0 +1,17 @@
+#!/bin/bash
+
+#SBATCH -p knl -C quad,cache
+#SBATCH --nodes=1
+#SBATCH -t 00:30:00
+#SBATCH --mail-type=BEGIN,END,FAIL
+##SBATCH --mail-user=<username>@sandia.gov
+#SBATCH --export=ALL
+#SBATCH --job-name=h5_ctestS
+
+cd @HDF5_BINARY_DIR@
+CMD="ctest . -E MPI_TEST_ -C Release -j 32 -T test"
+
+echo "Run $CMD. Test output will be in build/ctestS.out"
+$CMD >& ctestS.out
+echo "Done running $CMD"
+
diff --git a/bin/batch/ray_ctestP.lsf.in.cmake b/bin/batch/ray_ctestP.lsf.in.cmake
new file mode 100644
index 0000000..7067a65
--- /dev/null
+++ b/bin/batch/ray_ctestP.lsf.in.cmake
@@ -0,0 +1,20 @@
+#!/bin/tcsh
+### LSF syntax
+#BSUB -n 6 #number of nodes
+#BSUB -R "span[ptile=6]"
+#BSUB -W 30 #walltime in minutes
+#BSUB -G guests #account
+#BSUB -e ctestPerrors.txt #stderr
+#BSUB -o ctestPoutput.txt #stdout
+#BSUB -J hdf5_ctestP #job
+##BSUB -q pbatch #queue to use
+#BSUB -q pdebug
+
+##date; hostname
+##echo -n 'JobID is '; echo $LSB_JOBID
+
+cd @HDF5_BINARY_DIR@
+echo "Run parallel test command. Test output will be in build/ctestP.out"
+ctest . -R 'MPI_TEST_' -C Release -T test >& ctestP.out
+
+echo "Done running ctest parallel command."
diff --git a/bin/batch/ray_ctestS.lsf.in.cmake b/bin/batch/ray_ctestS.lsf.in.cmake
new file mode 100644
index 0000000..da20438
--- /dev/null
+++ b/bin/batch/ray_ctestS.lsf.in.cmake
@@ -0,0 +1,18 @@
+#!/bin/tcsh
+### LSF syntax
+#BSUB -n 1 #number of nodes
+#BSUB -W 29 #walltime in minutes
+#BSUB -G guests #account
+#BSUB -e ctestSerrors.txt #stderr
+#BSUB -o ctestSoutput.txt #stdout
+#BSUB -J hdf5_ctestS #job
+##BSUB -q pbatch #queue to use
+#BSUB -q pdebug
+
+cd @HDF5_BINARY_DIR@
+echo "Run command. Test output will be in build/ctestS.out"
+ctest . -E 'MPI_TEST_' -C Release -j 32 -T test >& ctestS.out
+
+##$CMD >& ctestS.out
+echo "Done running command."
+
diff --git a/bin/batch/raybsub b/bin/batch/raybsub
new file mode 100755
index 0000000..19dceef
--- /dev/null
+++ b/bin/batch/raybsub
@@ -0,0 +1,7 @@
+#!/bin/tcsh
+
+# ray.llnl.gov requires a '<' with bsub for submitting .lsf batch jobs.
+# CMake is reluctant to pass the '<', so we put it in this script and use
+# the script to submit the bsub command on ray.
+
+bsub < $1
diff --git a/bin/checkposix b/bin/checkposix
index 821d78c..233d15c 100755
--- a/bin/checkposix
+++ b/bin/checkposix
@@ -14,101 +14,165 @@ use warnings;
# If you do not have access to either file, you may request a copy from
# help@hdfgroup.org.
#
-# Robb Matzke, matzke@llnl.gov
-# 30 Aug 1997
+# Dana Robinson
+# Spring 2019
+# (Original by Robb Matzke)
#
-# Purpose: Given the names of C source files this script will print the
-# file name, line number, and function name of any function that
-# doesn't begin with the letter `h' or `H' as stipulated by the
-# HDF5 programming style guide.
+# Purpose: Given the names of C source files this script will print the
+# file name, line number, and function name of any function that
+# doesn't begin with the letter 'h' or 'H' as stipulated by the
+# HDF5 programming style guide.
#
-# Emacs users can run this script as the compile command and
-# use `next-error' (usually bound to M-`) to find each name
-# violation.
-
-if(<>) {
- if($ARGV =~ /\//) {
- ($filename) = ($ARGV =~ /^.*\/([A-Za-z0-9_]*)\.c$/);
- } else {
- ($filename) = ($ARGV =~ /([A-Za-z0-9_]*)\.c$/);
+# Emacs users can run this script as the compile command and
+# use 'next-error' (usually bound to M-`) to find each name
+# violation.
+
+use File::Basename;
+
+# Loop over all files passed to the function
+foreach $arg (@ARGV) {
+
+ # Get the filename from the path
+ $filename = fileparse($arg);
+
+ # Skip files that don't include H5private.h
+ # H5system. has to be inspected by hand since it wraps POSIX files
+ #
+ # H5detect and H5make_libsettings are created before the library exists
+ # so calls that link to function replacements won't work. We'll ignore
+ # it here.
+ #
+ # If a user specifies one file, process it no matter what so people
+ # can inspect files we normally skip (like H5system.c).
+ if($#ARGV gt 0 and $filename =~ /H5FDmulti|H5FDstdio|H5VLpassthru|H5system|H5detect|H5make_libsettings/) {
+ print "$filename is exempt from using Standard library macro wrappers\n";
+ next;
}
- if($filename =~ /H5FDmulti|H5FDstdio/) {
- print "$ARGV is exempt from using Standard library macro wrappers\n";
- } else {
- while (<>) {
-
- # Get rid of comments by removing the inside part.
- s|/\*.*?\*/||g;
- if ($in_comment) {
- if (/\*\//) {
- s|.*?\*/||;
- $in_comment = 0;
- } else {
- $_="\n";
- }
- } elsif (m|/\*|) {
- s|/\*.*||;
- $in_comment = 1;
- }
-
- # Get rid of string constants if they begin and end on this line.
- s/([\'\"])([^\1]|\\\1)*?\1/$1$1/g;
-
- # Get rid of preprocessor directives
- s/^\#.*//;
-
- # Skip callbacks invoked as methods in a struct
- next if $_ =~ /\b(\)?->|\.)\(?([a-z_A-Z]\w*)\s*\(/;
-
- # Now find all function calls on this line which don't start with 'H'
- while (($name)=/\b([a-z_A-GI-Z]\w*)\s*\(/) {
- $_ = $';
+ # Open the file
+ open(my $fh, "<", $arg) or do {
+ warn "NOTE: Unable to open $arg: !$\n";
+ next;
+ };
+
+ # Loop over all lines in the file to find undecorated functions
+ while (<$fh>) {
+
+ # Get rid of comments by removing the inside part.
+ s|/\*.*?\*/||g;
+ if ($in_comment) {
+ if (/\*\//) {
+ s|.*?\*/||;
+ $in_comment = 0;
+ } else {
+ $_="\n";
+ }
+ } elsif (m|/\*|) {
+ s|/\*.*||;
+ $in_comment = 1;
+ }
+
+ # Get rid of string constants if they begin and end on this line.
+ s/([\'\"])([^\1]|\\\1)*?\1/$1$1/g;
+
+ # Get rid of preprocessor directives
+ s/^\#.*//;
+
+ # Skip callbacks invoked as methods in a struct
+ next if $_ =~ /\b(\)?]?->|\.)\(?([a-z_A-Z]\w*)\s*\(/;
+
+ # Now find all function calls on this line which don't start with 'H'
+ while (($name)=/\b([a-z_A-GI-Z]\w*)\s*\(/) {
+ $_ = $';
- # Ignore C statements that look sort of like function
- # calls.
- next if $name =~ /^(if|for|offsetof|return|sizeof|switch|while|void)$/;
-
- # Ignore things that get misdetected because of the simplified
- # parsing that takes place here.
- next if $name =~ /^(int|herr_t|_term_interface)$/;
-
- # These are really HDF5 functions/macros even though they don't
- # start with `h' or `H'.
- next if $name =~ /^FUNC_(ENTER|LEAVE)(_(NO)?API|_PACKAGE|_STATIC)?(_NOFS|_NOCLEAR|_NOINIT)?(_NOFUNC|_TAG)?$/;
- next if $name =~ /^(BEGIN|END)_FUNC$/;
- next if $name =~ /^U?INT(8|16|32|64)(ENCODE|DECODE)(_VAR)?$/;
- next if $name =~ /^CI_(PRINT_STATS|INC_SRC|INC_DST)$/;
- next if $name =~ /^(ABS|ADDR_OVERFLOW|ALL_MEMBERS|BOUND|CONSTR|DETECT_[I|F|M]|DOWN)$/;
- next if $name =~ /^(MIN3?|MAX3?|NELMTS|POWER_OF_TWO|REGION_OVERFLOW)$/;
- next if $name =~ /^(UNIQUE_MEMBERS)$/;
- next if $name =~ /^addr_defined$/;
-
- # These functions/macros are exempt.
- next if $name =~ /^(main|[fs]?printf|va_(start|arg|end))$/;
-
- # These are Windows system calls. Ignore them.
- next if $name =~ /^(_get_osfhandle|GetFileInformationByHandle|SetFilePointer|GetLastError|SetEndOfFile)$/;
- next if $name =~ /^(FindNextFile|FindClose|_tzset|Wgettimeofday|GetSystemTimeAsFileTime|Wgetlogin|GetUserName)$/;
-
- # These are MPI function calls. Ignore them.
- next if $name =~ /^(MPI_|MPE_)/;
-
- # These are POSIX threads function calls. Ignore them.
- next if $name =~ /^pthread_/;
-
- # These are Windows threads function calls. Ignore them.
- next if $name =~ /^(_beginthread|(Initialize|Enter|Leave)CriticalSection|TlsAlloc)$/;
-
- # These are zlib & szlib function calls. Ignore them.
- next if $name =~ /^(inflate|SZ_)/;
- next if $name =~ /^compress2$/;
-
- print "$ARGV:$.: $name\n";
- }
-
- } continue {
- close ARGV if eof; # reset line number
+ # Ignore C statements that look sort of like function
+ # calls.
+ next if $name =~ /^(if|for|offsetof|return|sizeof|switch|while|void)$/;
+
+ # Ignore things that get misdetected because of the simplified
+ # parsing that takes place here.
+ next if $name =~ /^(int|herr_t|_term_interface|_term_package)$/;
+
+ # These are really HDF5 functions/macros even though they don't
+ # start with `h' or `H'.
+ next if $name =~ /^FUNC_(ENTER|LEAVE)(_(NO)?API|_PACKAGE|_STATIC)?(_NOFS|_NOCLEAR|_NOINIT)?(_NOFUNC|_TAG)?$/;
+ next if $name =~ /^(BEGIN|END)_FUNC$/;
+ next if $name =~ /^U?INT(8|16|32|64)(ENCODE|DECODE)(_VAR)?$/;
+ next if $name =~ /^CI_(PRINT_STATS|INC_SRC|INC_DST)$/;
+ next if $name =~ /^(ABS|ADDR_OVERFLOW|ALL_MEMBERS|BOUND|CONSTR|DETECT_[I|F|M]|DOWN)$/;
+ next if $name =~ /^(MIN3?|MAX3?|NELMTS|POWER_OF_TWO|REGION_OVERFLOW)$/;
+ next if $name =~ /^(UNIQUE_MEMBERS|S_ISDIR)$/;
+ next if $name =~ /^addr_defined$/;
+
+ # These functions/macros are exempt.
+ # op, cb, and OP are often spuriously flagged so ignore them.
+ next if $name =~ /^(main|op|cb|OP)$/;
+
+ # This often appears in preprocessor lines that span multiple lines
+ next if $name =~ /^(defined)$/;
+
+ # These are Windows system calls. Ignore them.
+ next if $name =~ /^(_get_osfhandle|GetFileInformationByHandle|SetFilePointer|GetLastError|SetEndOfFile)$/;
+ next if $name =~ /^(FindNextFile|FindClose|_tzset|Wgettimeofday|GetSystemTimeAsFileTime|Wgetlogin|GetUserName)$/;
+ next if $name =~ /^(DeleteCriticalSection|TlsFree|TlsGetValue|CreateThread)$/;
+ next if $name =~ /^(ExpandEnvironmentStringsA|LockFileEx|UnlockFileEx)$/;
+ next if $name =~ /^(DllMain|LocalAlloc|LocalFree)$/;
+ next if $name =~ /^(FindFirstFileA|FindNextFileA)$/;
+ next if $name =~ /^(_beginthread|(Initialize|Enter|Leave)CriticalSection|TlsAlloc)$/;
+
+ # These are MPI function calls. Ignore them.
+ next if $name =~ /^(MPI_|MPE_)/;
+
+ # These are POSIX threads function calls. Ignore them.
+ next if $name =~ /^pthread_/;
+
+ # These are zlib & szlib function calls. Ignore them.
+ next if $name =~ /^(inflate|SZ_)/;
+ next if $name =~ /^compress2$/;
+
+ # These is an H5Dfill function. Ignore it in this file.
+ if($filename =~ /H5Dfill/) {
+ next if $name =~ /^(alloc_func)$/;
+ }
+
+ # These are H5Zscaleoffset functions. Ignore them in this file.
+ if($filename =~ /H5Zscaleoffset/) {
+ next if $name =~ /^(pow_fun|round_fun|abs_fun|lround_fun|llround_fun)$/;
+ }
+
+ # TESTING (not comprehensive - just noise reduction)
+
+ # Test macros and functions (testhdf5.h)
+ next if $name =~ /^(AddTest|TestErrPrintf|TestSummary|TestCleanup|TestShutdown)$/;
+ next if $name =~ /^(CHECK|CHECK_PTR|CHECK_PTR_NULL|CHECK_PTR_EQ|CHECK_I)$/;
+ next if $name =~ /^(VERIFY|VERIFY_STR|VERIFY|TYPE|MESSAGE|ERROR)$/;
+
+ # Test macros and functions (h5test.h)
+ next if $name =~ /^(TESTING|PASSED|SKIPPED|FAIL_PUTS_ERROR|FAIL_STACK_ERROR|TEST_ERROR)$/;
+ next if $name =~ /^(GetTestExpress)$/;
+
+ # Ignore functions that start with test_ or check_
+ next if $name =~ /^test_/;
+ next if $name =~ /^check_/;
+
+ # Ignore functions that start with h5_
+ next if $name =~ /^h5_/;
+
+ # Ignore usage functions
+ next if $name =~ /^usage$/;
+
+ print "$filename:$.: $name\n";
}
+
}
+
+ # Close the file
+ close($fh);
+}
+
+if($#ARGV gt 0) {
+ print "\n";
+ print "NOTE:\n";
+ print "If any files were skipped due to being exempt, you can inspect them manually\n";
+ print "by using this script on them one at a time, which will always process the file.\n";
}
diff --git a/bin/genparser b/bin/genparser
index 8cf6ec2..e6aee5b 100755
--- a/bin/genparser
+++ b/bin/genparser
@@ -218,7 +218,7 @@ perl -0777 -pi -e 's/int H5LTyyparse/hid_t H5LTyyparse/igs' ${path_to_hl_src}/H5
# will simply ignore them, but we want to avoid those warnings.
for f in ${path_to_hl_src}/H5LTparse.c ${path_to_hl_src}/H5LTanalyze.c
do
- echo '#if __GNUC__ >= 4 && __GNUC_MINOR__ >=2 ' >> tmp.out
+ echo '#if defined __GNUC__ && 402 <= __GNUC__ * 100 + __GNUC_MINOR__ ' >> tmp.out
echo '#pragma GCC diagnostic ignored "-Wconversion" ' >> tmp.out
echo '#pragma GCC diagnostic ignored "-Wimplicit-function-declaration" ' >> tmp.out
echo '#pragma GCC diagnostic ignored "-Wlarger-than=" ' >> tmp.out
diff --git a/bin/h5cc.in b/bin/h5cc.in
new file mode 100644
index 0000000..9c4e3ca
--- /dev/null
+++ b/bin/h5cc.in
@@ -0,0 +1,399 @@
+#! /bin/sh
+##
+# Copyright by The HDF Group.
+# Copyright by the Board of Trustees of the University of Illinois.
+# All rights reserved.
+#
+# This file is part of HDF5. The full HDF5 copyright notice, including
+# terms governing use, modification, and redistribution, is contained in
+# the COPYING file, which can be found at the root of the source code
+# distribution tree, or in https://support.hdfgroup.org/ftp/HDF5/releases.
+# If you do not have access to either file, you may request a copy from
+# help@hdfgroup.org.
+##
+
+# This tool is adapted from the mpicc command of the MPICH Software.
+
+############################################################################
+## ##
+## Things You May Have to Modify: ##
+## ##
+## If the following paths don't point to the place were HDF5 is installed ##
+## on your system (i.e., you received a binary distribution or moved the ##
+## files from the originally installed directory to another directory) ##
+## then modify them accordingly to represent the new paths. ##
+## ##
+############################################################################
+prefix="@prefix@"
+exec_prefix="@exec_prefix@"
+libdir="@libdir@"
+includedir="@includedir@"
+HL="@HL@"
+
+############################################################################
+## ##
+## Things You Can Modify to Override HDF5 Library Build Components: ##
+## ##
+## (Advanced usage - know what you're doing - you're on your own here.) ##
+## The four variables below can be used to insert paths and flags in ##
+## CPPFLAGS, CFLAGS, LDFLAGS, or LIBS in the h5cc compile line: ##
+## $CLINKER $H5BLD_CPPFLAGS $CPPFLAGS $H5BLD_CFLAGS $CFLAGS $LDFLAGS ##
+## $LIBS $clibpath $link_objs $link_args $shared_link ##
+## ##
+## These settings can be overriden by setting HDF5_CFLAGS, ##
+## HDF5_CPPFLAGS, HDF5_LDFLAGS, or HDF5_LIBS in the environment. ##
+## ##
+############################################################################
+CFLAGSBASE=""
+CPPFLAGSBASE=""
+LDFLAGSBASE=""
+LIBSBASE=""
+
+############################################################################
+## ##
+## You shouldn't have to modify anything below this line. ##
+## ##
+############################################################################
+
+# Constants definitions
+EXIT_SUCCESS=0
+EXIT_FAILURE=1
+
+host_os="@host_os@"
+
+prog_name="`basename $0`"
+
+allargs=""
+compile_args=""
+libraries=""
+link_args=""
+link_objs=""
+clibpath=""
+
+do_link="yes"
+do_compile="no"
+dash_o="no"
+dash_c="no"
+get_output_file="no"
+
+SHOW="eval"
+CCBASE="@CC@"
+CLINKERBASE="@CC@"
+
+# CFLAGS, CPPFLAGS and LDFLAGS are reserved for use by the script user.
+# FLAGS brought from the hdf5 build are put in H5BLD_*FLAGS.
+
+# User's CPPFLAGS and CFLAGS come after their H5BLD counterparts. User's
+# LDFLAGS come just before clibpath, user's LIBS come after $link_objs and
+# before the hdf5 libraries in $link_args, followed by any external library
+# paths and libraries from AM_LDFLAGS, LDFLAGS, AM_LIBS or LIBS carried in
+# from the hdf5 build. The order of the flags is intended to give precedence
+# to the user's flags.
+H5BLD_CFLAGS="@AM_CFLAGS@ @CFLAGS@"
+H5BLD_CPPFLAGS="@AM_CPPFLAGS@ @CPPFLAGS@"
+H5BLD_LDFLAGS="@AM_LDFLAGS@ @LDFLAGS@"
+H5BLD_LIBS="@LIBS@"
+
+CC="${HDF5_CC:-$CCBASE}"
+CLINKER="${HDF5_CLINKER:-$CLINKERBASE}"
+CFLAGS="${HDF5_CFLAGS:-$CFLAGSBASE}"
+CPPFLAGS="${HDF5_CPPFLAGS:-$CPPFLAGSBASE}"
+LDFLAGS="${HDF5_LDFLAGS:-$LDFLAGSBASE}"
+LIBS="${HDF5_LIBS:-$LIBSBASE}"
+
+# If a static library is available, the default will be to use it. If the only
+# available library is shared, it will be used by default. The user can
+# override either default, although choosing an unavailable library will result
+# in link errors.
+STATIC_AVAILABLE="@enable_static@"
+if test "${STATIC_AVAILABLE}" = "yes"; then
+ USE_SHARED_LIB="${HDF5_USE_SHLIB:-no}"
+else
+ USE_SHARED_LIB="${HDF5_USE_SHLIB:-yes}"
+fi
+
+
+usage() {
+ # A wonderfully informative "usage" message.
+ echo "usage: $prog_name [OPTIONS] <compile line>"
+ echo " OPTIONS:"
+ echo " -help This help message."
+ echo " -echo Show all the shell commands executed"
+ echo " -prefix=DIR Prefix directory to find HDF5 lib/ and include/"
+ echo " subdirectories [default: $prefix]"
+ # A wonderfully informative "usage" message.
+ echo "usage: $prog_name [OPTIONS] <compile line>"
+ echo " OPTIONS:"
+ echo " -help This help message."
+ echo " -echo Show all the shell commands executed"
+ echo " -prefix=DIR Prefix directory to find HDF5 lib/ and include/"
+ echo " subdirectories [default: $prefix]"
+ echo " -show Show the commands without executing them"
+ echo " -showconfig Show the HDF5 library configuration summary"
+ echo " -shlib Compile with shared HDF5 libraries [default for hdf5 built"
+ echo " without static libraries]"
+ echo " -noshlib Compile with static HDF5 libraries [default for hdf5 built"
+ echo " with static libraries]"
+ echo " "
+ echo " <compile line> - the normal compile line options for your compiler."
+ echo " $prog_name uses the same compiler you used to compile"
+ echo " HDF5. Check with your compiler's man pages for more"
+ echo " information on which options are needed."
+ echo " "
+ echo " You can override the compiler, linker, and whether or not to use static"
+ echo " or shared libraries to compile your program by setting the following"
+ echo " environment variables accordingly:"
+ echo " "
+ echo " HDF5_CC - use a different C compiler"
+ echo " HDF5_CLINKER - use a different linker"
+ echo " HDF5_USE_SHLIB=[yes|no] - use shared or static version of the HDF5 library"
+ echo " [default: no except when built with only"
+ echo " shared libraries]"
+ echo " "
+ echo " You can also add or change paths and flags to the compile line using"
+ echo " the following environment varibles or by assigning them to their counterparts"
+ echo " in the 'Things You Can Modify to Override...'" section of $prog_name
+ echo " "
+ echo " Variable Current value to be replaced"
+ echo " HDF5_CPPFLAGS \"$CPPFLAGSBASE\""
+ echo " HDF5_CFLAGS \"$CFLAGSBASE\""
+ echo " HDF5_LDFLAGS \"$LDFLAGSBASE\""
+ echo " HDF5_LIBS \"$LIBSBASE\""
+ echo " "
+ echo " Note that adding library paths to HDF5_LDFLAGS where another hdf5 version"
+ echo " is located may link your program with that other hdf5 library version."
+ echo " "
+ exit $EXIT_FAILURE
+}
+
+# Show the configuration summary of the library recorded in the
+# libhdf5.settings file reside in the lib directory.
+showconfigure()
+{
+ cat ${libdir}/libhdf5.settings
+ status=$?
+}
+
+# Main
+status=$EXIT_SUCCESS
+
+if test "$#" = "0"; then
+ # No parameters specified, issue usage statement and exit.
+ usage
+fi
+
+case "$CC" in
+ gcc)
+ kind="gcc"
+ ;;
+ mpicc|mpcc|mpicc_r)
+ # Is this gcc masquarading as an MPI compiler?
+ if test "`${CC} -v 2>&1 | sed -n 2p | cut -c1-3`" = "gcc"; then
+ kind="gcc"
+ else
+ # Nope
+ kind="$host_os"
+ fi
+ ;;
+ *)
+ kind="$host_os"
+ ;;
+esac
+
+for arg in $@ ; do
+ if test "x$get_output_file" = "xyes"; then
+ link_args="$link_args $arg"
+ output_file="$arg"
+ get_output_file="no"
+ continue
+ fi
+
+ case "$arg" in
+ -c)
+ allargs="$allargs $arg"
+ compile_args="$compile_args $arg"
+
+ if test "x$do_link" = "xyes" -a -n "$output_file"; then
+ compile_args="$compile_args -o $output_file"
+ fi
+
+ do_link="no"
+ dash_c="yes"
+ ;;
+ -o)
+ allargs="$allargs $arg"
+ dash_o="yes"
+
+ if test "x$dash_c" = "xyes"; then
+ compile_args="$compile_args $arg"
+ else
+ link_args="$link_args $arg"
+ do_link="yes"
+ get_output_file="yes"
+ fi
+ ;;
+ -E|-M|-MT)
+ allargs="$allargs $arg"
+ compile_args="$compile_args $arg"
+ dash_c="yes"
+ do_link="no"
+ ;;
+ -l*)
+ libraries=" $libraries $arg "
+ allargs="$allargs $arg"
+ ;;
+ -prefix=*)
+ prefix="`expr "$arg" : '-prefix=\(.*\)'`"
+ ;;
+ -echo)
+ set -x
+ ;;
+ -show)
+ SHOW="echo"
+ ;;
+ -showconfig)
+ showconfigure
+ exit $status
+ ;;
+ -shlib)
+ USE_SHARED_LIB="yes"
+ ;;
+ -noshlib)
+ USE_SHARED_LIB="no"
+ ;;
+ -help)
+ usage
+ ;;
+ *\"*)
+ qarg="'"$arg"'"
+ allargs="$allargs $qarg"
+ ;;
+ *\'*)
+ qarg='\"'"$arg"'\"'
+ allargs="$allargs $qarg"
+ ;;
+ *)
+ allargs="$allargs $qarg"
+
+ if test -s "$arg"; then
+ ext=`expr "$arg" : '.*\(\..*\)'`
+
+ if test "x$ext" = "x.c"; then
+ do_compile="yes"
+ compile_args="$compile_args $arg"
+ fname=`basename $arg .c`
+ link_objs="$link_objs $fname.o"
+ elif test "x$ext" = "x.o"; then
+ if test "x$dash_c" = "xyes"; then
+ compile_args="$compile_args $arg"
+ else
+ do_link="yes"
+ link_objs="$link_objs $arg"
+ fi
+ elif test "x$ext" = "x.a"; then
+ # This is an archive that we're linking in
+ libraries=" $libraries $arg "
+ else
+ compile_args="$compile_args $arg"
+ link_args="$link_args $arg"
+ fi
+ else
+ compile_args="$compile_args $arg"
+ link_args="$link_args $arg"
+ fi
+ ;;
+ esac
+done
+
+if test "$dash_c" = "yes" -a "$do_compile" = no -a "$do_link" = no ; then
+ # -c was specified. Force do_compile on.
+ do_compile=yes
+fi
+
+if test "x$do_compile" = "xyes"; then
+ if test "x$dash_c" != "xyes"; then
+ compile_args="-c $compile_args"
+ fi
+
+ $SHOW $CC -I$includedir $H5BLD_CPPFLAGS $CPPFLAGS $H5BLD_CFLAGS $CFLAGS $compile_args
+ status=$?
+
+ if test "$status" != "0"; then
+ exit $status
+ fi
+fi
+
+if test "x$do_link" = "xyes"; then
+ shared_link=""
+# conditionnaly link with the hl library
+ if test "X$HL" = "Xhl"; then
+ libraries=" $libraries -lhdf5_hl -lhdf5 "
+ else
+ libraries=" $libraries -lhdf5 "
+ fi
+ link_args="$link_args -L${libdir}"
+
+ case "$kind" in
+ gcc|linux*)
+ # MacOS X doesn't support the "-Wl,-rpath -Wl," style of linker flags.
+ # It appears to want none of them specified.
+ case "$host_os" in
+ darwin*) flag="" ;;
+ *) flag="-Wl,-rpath -Wl," ;;
+ esac
+ ;;
+ hpux*) flag="-Wl,+b -Wl," ;;
+ freebsd*|solaris*) flag="-R" ;;
+ rs6000*|aix*) flag="-L" ;;
+ sgi) flag="-rpath " ;;
+ *) flag="" ;;
+ esac
+
+ if test -n "$flag"; then
+ shared_link="${flag}${libdir}"
+ fi
+
+ if test "x$USE_SHARED_LIB" != "xyes"; then
+ # The "-lhdf5" & "-lhdf5_hl" flags are in here already...This is a static
+ # compile though, so change it to the static version (.a) of the library.
+ new_libraries=""
+ for lib in $libraries; do
+ case "$lib" in
+ -lhdf5)
+ new_libraries="$new_libraries ${libdir}/libhdf5.a"
+ ;;
+ -lhdf5_hl)
+ new_libraries="$new_libraries ${libdir}/libhdf5_hl.a"
+ ;;
+ *)
+ new_libraries="$new_libraries $lib"
+ ;;
+ esac
+ done
+ libraries="$new_libraries"
+ fi
+
+ for lib in $libraries; do
+ if echo $link_args | grep " $lib " > /dev/null ||
+ echo $link_args | grep " $lib$" > /dev/null; then
+ :
+ else
+ link_args="$link_args $lib "
+ fi
+ done
+
+ # The LIBS are just a bunch of -l* libraries necessary for the HDF5
+ # module. It's okay if they're included twice in the compile line.
+ link_args="$link_args $H5BLD_LDFLAGS $H5BLD_LIBS"
+
+ # User's CPPFLAGS and CFLAGS come after their H5BLD counterparts. User's
+ # LDFLAGS come just before clibpath, user's LIBS come after $link_objs and
+ # before the hdf5 libraries in $link_args, followed by any external library
+ # paths and libraries from AM_LDFLAGS, LDFLAGS, AM_LIBS or LIBS carried in
+ # from the hdf5 build. The order of the flags is intended to give precedence
+ # to the user's flags.
+ $SHOW $CLINKER $H5BLD_CPPFLAGS $CPPFLAGS $H5BLD_CFLAGS $CFLAGS $LDFLAGS $clibpath $link_objs $LIBS $link_args $shared_link
+ status=$?
+fi
+
+exit $status
diff --git a/bin/h5redeploy.in b/bin/h5redeploy.in
new file mode 100644
index 0000000..242459a
--- /dev/null
+++ b/bin/h5redeploy.in
@@ -0,0 +1,216 @@
+#! /bin/sh
+#
+# Copyright by The HDF Group.
+# Copyright by the Board of Trustees of the University of Illinois.
+# All rights reserved.
+#
+# This file is part of HDF5. The full HDF5 copyright notice, including
+# terms governing use, modification, and redistribution, is contained in
+# the COPYING file, which can be found at the root of the source code
+# distribution tree, or in https://support.hdfgroup.org/ftp/HDF5/releases.
+# If you do not have access to either file, you may request a copy from
+# help@hdfgroup.org.
+#
+
+## Update HDF5 compiler tools after the HDF5 software has been installed ##
+## in a new location. ##
+## For help page, use "h5redeploy -help" ##
+## ##
+
+# Constants definitions
+EXIT_SUCCESS=0
+EXIT_FAILURE=1
+
+# Function definitions
+
+# show help page
+usage() {
+ # A wonderfully informative "usage" message.
+ echo "usage: $prog_name [OPTIONS]"
+ echo " OPTIONS:"
+ echo " -help|help This help message"
+ echo " -echo Show all the shell commands executed"
+ echo " -force No prompt, just do it"
+ echo " -prefix=DIR New directory to find HDF5 lib/ and include/"
+ echo " subdirectories [default: current directory]"
+ echo " -exec-prefix=DIR New directory to find HDF5 lib/"
+ echo " subdirectory [default: <prefix>]"
+ echo " -libdir=DIR New directory for the HDF5 lib directory"
+ echo " [default: <exec-prefix>/lib]"
+ echo " -includedir=DIR New directory for the HDF5 header files"
+ echo " [default: <prefix>/include]"
+ echo " -tool=TOOL Tool to update. TOOL must be in the current"
+ echo " directory and writable. [default: $h5tools]"
+ echo " -show Show the commands without executing them"
+ echo " "
+ exit $EXIT_FAILURE
+}
+
+# display variable values
+dump_vars(){
+ echo "====Showing all variable values====="
+ echo prefix=$prefix
+ echo h5tools=$h5tools
+ echo "====End Showing====="
+}
+
+# show actions to be taken
+show_action()
+{
+ echo "Update the following tools because they are now installed at a new directory"
+ for t in $foundtools; do
+ echo "${t}:"
+ echo " current setting=`sed -e '/^prefix=/s/prefix=//p' -e d $t`"
+ echo " new setting="\""$prefix"\"
+ done
+}
+
+
+# Report Error message
+ERROR()
+{
+ echo "***ERROR***"
+ echo "$1"
+}
+
+# Main
+#
+############################################################################
+## Installation directories: ##
+## prefix architecture-independent files. ##
+## exec_prefix architecture-dependent files, default is <prefix>. ##
+## libdir libraries, default is <exec_prefix>/lib. ##
+## includedir header files, default is <prefix/include>. ##
+## Not used here: ##
+## bindir executables, <exec_prefix/bin>. ##
+############################################################################
+# Initialization
+h5tools="h5cc h5pcc h5fc h5pfc h5c++" # possible hdf5 tools
+foundtools= # tools found and will be modified
+fmode= # force mode, default is off
+prefix=
+exec_prefix=
+libdir=
+includedir=
+
+# Parse options
+for arg in $@ ; do
+ case "$arg" in
+ -prefix=*)
+ prefix="`echo $arg | cut -f2 -d=`"
+ ;;
+ -exec-prefix=*)
+ exec_prefix="`echo $arg | cut -f2 -d=`"
+ ;;
+ -libdir=*)
+ libdir="`echo $arg | cut -f2 -d=`"
+ ;;
+ -includedir=*)
+ includedir="`echo $arg | cut -f2 -d=`"
+ ;;
+ -echo)
+ set -x
+ ;;
+ -show)
+ SHOW="echo"
+ ;;
+ -tool=*)
+ h5tools="`echo $arg | cut -f2 -d=`"
+ ;;
+ -help|help)
+ usage
+ ;;
+ -force)
+ fmode=yes
+ ;;
+ *)
+ ERROR "Unknown Option($arg)"
+ usage
+ exit $EXIT_FAILURE
+ ;;
+ esac
+done
+
+# Set to default value, one above where i am, if not given by user
+if [ -z "$prefix" ]; then
+ prefix=`(cd ..;pwd)`
+fi
+if [ -z "$exec_prefix" ]; then
+ exec_prefix='${prefix}' # use single quotes to prevent expansion of $
+fi
+if [ -z "$libdir" ]; then
+ libdir='${exec_prefix}'/lib # use single quotes to prevent expansion of $
+fi
+if [ -z "$includedir" ]; then
+ includedir='${prefix}'/include # use single quotes to prevent expansion of $
+fi
+
+for x in $h5tools; do
+ if [ -f $x ]; then
+ foundtools="$foundtools $x"
+ if [ ! -w $x ]; then
+ ERROR "h5tool($x) is not writable"
+ exit $EXIT_FAILURE
+ fi
+ fi
+done
+
+if [ -z "$foundtools" ]; then
+ ERROR "found no tools to modify"
+ exit $EXIT_FAILURE
+fi
+
+# Show actions to be taken and get consent
+show_action
+# Ask confirmation unless fmode is on
+if [ x-$fmode = x- ]; then
+ echo "Continue? (yes/no)"
+ read ansx
+ ans=`echo $ansx | tr "[A-Z]" "[a-z]"`
+ if [ x-$ans != x-yes ]; then
+ echo ABORT. No tools changed.
+ exit $EXIT_FAILURE
+ fi
+fi
+
+
+# Create the update commands
+CMDFILE=/tmp/h5redeploy.$$
+touch $CMDFILE
+chmod 0600 $CMDFILE
+echo "/^prefix=/c" >> $CMDFILE
+echo prefix=\""$prefix"\" >> $CMDFILE
+echo . >> $CMDFILE
+echo "/^exec_prefix=/c" >> $CMDFILE
+echo exec_prefix=\""$exec_prefix"\" >> $CMDFILE
+echo . >> $CMDFILE
+echo "/^libdir=/c" >> $CMDFILE
+echo libdir=\""$libdir"\" >> $CMDFILE
+echo . >> $CMDFILE
+echo "/^includedir=/c" >> $CMDFILE
+echo includedir=\""$includedir"\" >> $CMDFILE
+echo . >> $CMDFILE
+(echo w; echo q) >> $CMDFILE
+
+
+# Update them
+if [ "$SHOW" = "echo" ]; then
+ echo "===Update commands are:===="
+ cat $CMDFILE
+ echo "===End Update commands====="
+fi
+
+for t in $foundtools; do
+ echo Update $t ...
+ COMMAND="ed - $t"
+ if [ "$SHOW" = "echo" ]; then
+ echo $COMMAND
+ else
+ $COMMAND < $CMDFILE
+ fi
+done
+
+
+# Cleanup
+rm -f $CMDFILE
+exit $EXIT_SUCCESS
diff --git a/bin/h5vers b/bin/h5vers
index a00beb7..4200141 100755
--- a/bin/h5vers
+++ b/bin/h5vers
@@ -377,7 +377,7 @@ if ($H5_JAVA) {
my $version_string2 = sprintf("%d, %d, %d", @newver[0,1,2]);
$data =~ s/\@version HDF5 .* <BR>/\@version HDF5 $version_string1 <BR>/;
- $data =~ s/ public final static int LIB_VERSION\[\] = { \d*, \d*, \d* };/ public final static int LIB_VERSION[] = { $version_string2 };/;
+ $data =~ s/ public final static int LIB_VERSION\[\] = \{ \d*, \d*, \d* \};/ public final static int LIB_VERSION[] = \{ $version_string2 \};/;
write_file($H5_JAVA, $data);
}
@@ -394,7 +394,7 @@ if ($TESTH5_JAVA) {
my $version_string1 = sprintf("%d, %d, %d", @newver[0,1,2]);
my $version_string2 = sprintf("int majnum = %d, minnum = %d, relnum = %d", @newver[0,1,2]);
- $data =~ s/ int libversion\[\] = { .* };/ int libversion\[\] = { $version_string1 };/;
+ $data =~ s/ int libversion\[\] = \{ .* \};/ int libversion\[\] = \{ $version_string1 \};/;
$data =~ s/ int majnum = \d*, minnum = \d*, relnum = \d*;/ $version_string2;/;
write_file($TESTH5_JAVA, $data);
@@ -405,7 +405,7 @@ if ($REPACK_LAYOUT_PLUGIN_VERSION) {
my $data = read_file($REPACK_LAYOUT_PLUGIN_VERSION);
my $version_string = sprintf("%d %d %d", @newver[0,1,2]);
- $data =~ s/ PARAMS { 9 \d* \d* \d* }/ PARAMS { 9 $version_string }/g;
+ $data =~ s/ PARAMS \{ 9 \d* \d* \d* \}/ PARAMS \{ 9 $version_string \}/g;
write_file($REPACK_LAYOUT_PLUGIN_VERSION, $data);
}
diff --git a/bin/make_vers b/bin/make_vers
index 8316393..c6d2c04 100755
--- a/bin/make_vers
+++ b/bin/make_vers
@@ -8,8 +8,8 @@ use warnings;
# is added (like support for 1.4, etc), the min_sup_idx parameter will
# need to be decremented. - QAK)
-# Max. library "index" (0 = v1.0, 1 = 1.2, 2 = 1.4, 3 = 1.6, 4 = 1.8, 5 = 1.10, 6 = 1.12, etc)
-$max_idx = 6;
+# Max. library "index" (0 = v1.0, 1 = 1.2, 2 = 1.4, 3 = 1.6, 4 = 1.8, 5 = 1.10, 6 = 1.12, 7 = 1.14, etc)
+$max_idx = 7;
# Min. supported previous library version "index" (0 = v1.0, 1 = 1.2, etc)
$min_sup_idx = 3;
diff --git a/bin/makehelp b/bin/makehelp
index d6fbda2..4707397 100755
--- a/bin/makehelp
+++ b/bin/makehelp
@@ -40,6 +40,7 @@ make distclean: remove all files generated by make, make check, or
make check-p: Only run parallel tests
make check-s: Only run serial tests
make check-vfd: Run tests with each virtual file driver
+make check-vol: Run tests with each virtual object layer connector
HDF5 uses Automake, so any standard Automake targets not listed here
should also work.
diff --git a/bin/release b/bin/release
index afdbb51..a9cf3f0 100755
--- a/bin/release
+++ b/bin/release
@@ -55,13 +55,21 @@ for compressing the resulting tar archive (if none are given then
tar -- use tar and don't do any compressing.
gzip -- use gzip with "-9" and append ".gz" to the output name.
+ bzip2 -- use bzip2 with "-9" and append ".bz2" to the output name.
+ zip -- convert all text files to DOS style and form a zip file for Windows use.
cmake-tgz -- create a tar file using the gzip default level with a build-unix.sh
command file and all other CMake files needed to build HDF5 source
using CMake on unix machines.
- bzip2 -- use bzip2 with "-9" and append ".bz2" to the output name.
- zip -- convert all text files to DOS style and form a zip file for Windows use.
cmake-zip -- convert all text files to DOS style and create a zip file inluding cmake
scripts and .bat files to build HDF5 source using CMake on Windows.
+ hpc-cmake-tgz
+ -- create a tar file using the gzip default level with a build-unix.sh
+ command file and all other CMake files needed to build HDF5 source
+ using CMake on unix machines, with HDF5options.cmake files for serial
+ and parallel builds on machines requiring batch jobs to run tests.
+ The default is for parallel build, with serial only build by changing
+ the HDF5options.cmake symlink to ser-HDF5options.cmake. More
+ information is available in the README_HPC file.
doc -- produce the latest doc tree in addition to the archive.
An md5 checksum is produced for each archive created and stored in the md5 file.
@@ -225,7 +233,7 @@ tar2cmakezip()
# step 3: add SZIP.tar.gz, ZLib.tar.gz and cmake files
cp /mnt/scr1/pre-release/hdf5/CMake/SZip.tar.gz $cmziptmpsubdir
cp /mnt/scr1/pre-release/hdf5/CMake/ZLib.tar.gz $cmziptmpsubdir
- cp /mnt/scr1/pre-release/hdf5/CMake/HDF5Examples-1.10.8-Source.tar.gz $cmziptmpsubdir
+ cp /mnt/scr1/pre-release/hdf5/CMake/HDF5Examples-1.14.0-Source.zip $cmziptmpsubdir
cp $cmziptmpsubdir/$version/config/cmake/scripts/CTestScript.cmake $cmziptmpsubdir
cp $cmziptmpsubdir/$version/config/cmake/scripts/HDF5config.cmake $cmziptmpsubdir
cp $cmziptmpsubdir/$version/config/cmake/scripts/HDF5options.cmake $cmziptmpsubdir
@@ -256,7 +264,7 @@ tar2cmakezip()
}
# Function name: tar2cmaketgz
-# Convert the release tarball to a Windows zipball with files to run CMake build.
+# Convert the release tarball to a gzipped tar file with files to run CMake build.
#
# Programmer: Larry Knox
# Creation date: 2017-02-20
@@ -320,7 +328,7 @@ tar2cmaketgz()
# step 3: add SZIP.tar.gz, ZLib.tar.gz and cmake files
cp /mnt/scr1/pre-release/hdf5/CMake/SZip.tar.gz $cmgztmpsubdir
cp /mnt/scr1/pre-release/hdf5/CMake/ZLib.tar.gz $cmgztmpsubdir
- cp /mnt/scr1/pre-release/hdf5/CMake/HDF5Examples-1.10.8-Source.tar.gz $cmgztmpsubdir
+ cp /mnt/scr1/pre-release/hdf5/CMake/HDF5Examples-1.14.0-Source.tar.gz $cmgztmpsubdir
cp $cmgztmpsubdir/$version/config/cmake/scripts/CTestScript.cmake $cmgztmpsubdir
cp $cmgztmpsubdir/$version/config/cmake/scripts/HDF5config.cmake $cmgztmpsubdir
cp $cmgztmpsubdir/$version/config/cmake/scripts/HDF5options.cmake $cmgztmpsubdir
@@ -330,6 +338,93 @@ tar2cmaketgz()
rm -rf $cmgztmpdir
}
+# Function name: tar2hpccmaketgz
+# Convert the release tarball to a gzipped tarfile with files to run CMake build
+# and HDF5options.cmake files for parallel or serial only builds where build
+# tests are run on compute nodes using batch scripts.
+#
+# Programmer: Larry Knox
+# Creation date: 2019-01-28
+#
+# Modifications
+#
+# Steps:
+# 1. untar the tarball in a temporary directory;
+# Note: do this in a temporary directory to avoid changing
+# the original source directory which may be around.
+# 2. add build-unix.sh script.
+# 3. add SZIP.tar.gz, ZLib.tar.gz and cmake files to top level directory.
+# 4. create gzipped tar file with these contents:
+# build-unix.sh script
+# hdf5-<version> source code directory extracted from tar file
+# CTestScript.cmake cmake file copied from <hdf5 source code>/config/cmake/scripts
+# HDF5config.cmake cmake file copied from <hdf5 source code>/config/cmake/scripts
+# HDF5options.cmake cmake file copied from <hdf5 source code>/config/cmake/scripts
+# SZip.tar.gz copied from /mnt/scr1/pre-release/hdf5/CMake
+# ZLib.tar.gz copied from /mnt/scr1/pre-release/hdf5/CMake
+#
+# 5. For HPC-CMake tgz file the following are also needed in the top-level directory:
+# README_HPC copied from release_docs
+# ser-HDF5options.cmake copied from <hdf5 source code>/config/cmake/scripts/HPC
+# par-HDF5options.cmake copied from <hdf5 source code>/config/cmake/scripts/HPC
+# HDF5options.cmake symlink to par-HDF5options.cmake
+#
+
+# Parameters:
+# $1 version
+# $2 release tarball
+# $3 output zipball file name
+#
+# Returns 0 if successful; 1 otherwise
+#
+ # need function to create another temporary directory, extract the
+ # $tmpdir/$HDF5_VERS.tar into it, create build-unix.sh,
+ # add CTestScript.cmake, HDF5config.cmake, SZIP.tar.gz
+ # ZLib.tar.gz, HDF5 examples, and then tar.gz it.
+tar2hpccmaketgz()
+{
+ if [ $# -ne 3 ]; then
+ echo "usage: tar2hpccmaketgz <tarfilename> <tgzfilename>"
+ return 1
+ fi
+ cmgztmpdir=/tmp/cmgztmpdir$$
+ cmgztmpsubdir=$cmgztmpdir/HPC-CMake-$HDF5_VERS
+ mkdir -p $cmgztmpsubdir
+ version=$1
+ tarfile=$2
+ tgzfile=$3
+
+ # step 1: untar tarball in cmgztmpdir
+ (cd $cmgztmpsubdir; tar xf -) < $tarfile
+ # sanity check
+ if [ ! -d $cmgztmpsubdir/$version ]; then
+ echo "untar did not create $cmgztmpsubdir/$version source dir"
+ # cleanup
+ rm -rf $cmgztmpdir
+ return 1
+ fi
+
+
+ # step 2: add build-unix.sh script
+ (cd $cmgztmpsubdir; echo "ctest -S HDF5config.cmake,BUILD_GENERATOR=Unix -C Release -V -O hdf5.log" > build-unix.sh; chmod 755 build-unix.sh)
+
+ # step 3: add SZIP.tar.gz, ZLib.tar.gz and cmake files
+ cp /mnt/scr1/pre-release/hdf5/CMake/SZip.tar.gz $cmgztmpsubdir
+ cp /mnt/scr1/pre-release/hdf5/CMake/ZLib.tar.gz $cmgztmpsubdir
+ cp /mnt/scr1/pre-release/hdf5/CMake/HDF5Examples-1.14.0-Source.tar.gz $cmgztmpsubdir
+ cp $cmgztmpsubdir/$version/config/cmake/scripts/CTestScript.cmake $cmgztmpsubdir
+ cp $cmgztmpsubdir/$version/config/cmake/scripts/HDF5config.cmake $cmgztmpsubdir
+
+ cp $cmgztmpsubdir/$version/release_docs/README_HPC $cmgztmpsubdir
+ cp $cmgztmpsubdir/$version/config/cmake/scripts/HPC/ser-HDF5options.cmake $cmgztmpsubdir
+ cp $cmgztmpsubdir/$version/config/cmake/scripts/HPC/par-HDF5options.cmake $cmgztmpsubdir
+ (cd $cmgztmpsubdir; ln -s par-HDF5options.cmake HDF5options.cmake)
+ tar czf $DEST/HPC-CMake-$HDF5_VERS.tar.gz -C $cmgztmpdir . || exit 1
+
+ # cleanup
+ rm -rf $cmgztmpdir
+}
+
# This command must be run at the top level of the hdf5 source directory.
# Verify this requirement.
if [ ! \( -f configure.ac -a -f bin/release \) ]; then
@@ -514,6 +609,11 @@ for comp in $methods; do
tar2cmaketgz $HDF5_VERS $tmpdir/$HDF5_VERS.tar $DEST/CMake-$HDF5_VERS.tar.gz 1>&2
(cd $DEST; md5sum CMake-$HDF5_VERS.tar.gz >> $MD5file)
;;
+ hpc-cmake-tgz)
+ test "$verbose" && echo " Creating HPC-CMake tar.gz file..." 1>&2
+ tar2hpccmaketgz $HDF5_VERS $tmpdir/$HDF5_VERS.tar $DEST/HPC-CMake-$HDF5_VERS.tar.gz 1>&2
+ (cd $DEST; md5sum HPC-CMake-$HDF5_VERS.tar.gz >> $MD5file)
+ ;;
bzip2)
test "$verbose" && echo " Running bzip2..." 1>&2
bzip2 -9 <$tmpdir/$HDF5_VERS.tar >$DEST/$HDF5_VERS.tar.bz2
diff --git a/bin/snapshot b/bin/snapshot
index 5c78fc8..1218caa 100755
--- a/bin/snapshot
+++ b/bin/snapshot
@@ -130,9 +130,10 @@ DISPLAYUSAGE()
set -
cat <<EOF
Usage: $PROGNAME [all] [checkout] [ftp <URL> [diff] [test] [srcdir] [release] [help]
- [clean] [distclean] [echo] [deploy <dir>] [deploydir <dir>]
- [zlib <zlib_path>] [releasedir <dir>] [srcdirname <dir>] [check-vfd]
- [exec <command>] [module-load <module-list>] [op-configure <option>]
+ [clean] [distclean] [echo] [deploy <dir>] [deploydir <dir>]
+ [zlib <zlib_path>] [releasedir <dir>] [srcdirname <dir>] [check-vfd]
+ [check-passthrough-vol]
+ [exec <command>] [module-load <module-list>] [op-configure <option>]
[--<option>]
all: Run all commands (checkout, test & release)
[Default is all]
@@ -149,8 +150,8 @@ Usage: $PROGNAME [all] [checkout] [ftp <URL> [diff] [test] [srcdir] [release] [h
setenv <name> <value>:
Set environment variable <name> to <value>.
setenvN <N> <name> <value> ...:
- Set environment variable with <N> values.
- E.g., setenvN 3 x a b c is same as setenv x="a b c".
+ Set environment variable with <N> values.
+ E.g., setenvN 3 x a b c is same as setenv x="a b c".
srcdir: Use srcdir option (does not imply other commands)
"snapshot srcdir" is equivalent to "snapshot srcdir all"
"snapshot srcdir checkout" is equivalent to "snapshot checkout"
@@ -168,7 +169,12 @@ Usage: $PROGNAME [all] [checkout] [ftp <URL> [diff] [test] [srcdir] [release] [h
Use <dir> as the release directory
[Default is $ReleaseDir_default]
check-vfd:
- Run make check-vfd instead of just make check.
+ Run make check-vfd instead of just make check.
+ check-passthrough-vol:
+ Run make check-passthrough-vol instead of just make check.
+ NOTE: Will only succeed with passthrough VOL connectors
+ that use the native VOL connector as the terminal
+ connector.
exttest <testscript>;
Run testscript;
exec <command>:
@@ -422,6 +428,9 @@ while [ $# -gt 0 ] ; do
check-vfd)
CHECKVAL=check-vfd
;;
+ check-passthrough-vol)
+ CHECKVAL=check-passthrough-vol
+ ;;
module-load)
shift
if [ $# -lt 1 ]; then
diff --git a/bin/trace b/bin/trace
index f196b85..c1413b8 100755
--- a/bin/trace
+++ b/bin/trace
@@ -47,6 +47,7 @@ $Source = "";
"H5E_direction_t" => "Ed",
"H5E_error_t" => "Ee",
"H5E_type_t" => "Et",
+ "H5ES_status_t" => "Es",
"H5F_close_degree_t" => "Fd",
"H5F_fspace_strategy_t" => "Ff",
"H5F_file_space_type_t" => "Ff",
@@ -68,6 +69,7 @@ $Source = "";
"unsigned" => "Iu",
"unsigned int" => "Iu",
"uint32_t" => "Iu",
+ "uint64_t" => "UL",
"H5I_type_t" => "It",
"H5G_link_t" => "Ll", #Same as H5L_type_t now
"H5L_type_t" => "Ll",
@@ -77,7 +79,9 @@ $Source = "";
"off_t" => "o",
"H5O_type_t" => "Ot",
"H5P_class_t" => "p",
- "hobj_ref_t" => "r",
+ "hobj_ref_t" => "Ro",
+ "hdset_reg_ref_t" => "Rd",
+ "H5R_ref_t" => "Rr",
"H5R_type_t" => "Rt",
"char" => "s",
"unsigned char" => "s",
@@ -96,6 +100,24 @@ $Source = "";
"H5T_str_t" => "Tz",
"unsigned long" => "Ul",
"unsigned long long" => "UL",
+ "H5VL_attr_get_t" => "Va",
+ "H5VL_attr_specific_t" => "Vb",
+ "H5VL_blob_specific_t" => "VB",
+ "H5VL_class_value_t" => "VC",
+ "H5VL_dataset_get_t" => "Vc",
+ "H5VL_dataset_specific_t" => "Vd",
+ "H5VL_datatype_get_t" => "Ve",
+ "H5VL_datatype_specific_t" => "Vf",
+ "H5VL_file_get_t" => "Vg",
+ "H5VL_file_specific_t" => "Vh",
+ "H5VL_group_get_t" => "Vi",
+ "H5VL_group_specific_t" => "Vj",
+ "H5VL_link_create_type_t" => "Vk",
+ "H5VL_link_get_t" => "Vl",
+ "H5VL_link_specific_t" => "Vm",
+ "H5VL_object_get_t" => "Vn",
+ "H5VL_object_specific_t" => "Vo",
+ "H5VL_request_specific_t" => "Vr",
"void" => "x",
"FILE" => "x",
"H5A_operator_t" => "x",
@@ -122,14 +144,18 @@ $Source = "";
"H5FD_t" => "x",
"H5FD_class_t" => "x",
"H5FD_stream_fapl_t" => "x",
+ "H5FD_ros3_fapl_t" => "x",
+ "H5FD_hdfs_fapl_t" => "x",
"H5FD_file_image_callbacks_t" => "x",
"H5G_iterate_t" => "x",
"H5G_info_t" => "x",
"H5I_free_t" => "x",
+ "H5I_iterate_func_t" => "x",
"H5I_search_func_t" => "x",
"H5L_class_t" => "x",
"H5L_elink_traverse_t" => "x",
"H5L_iterate_t" => "x",
+ "H5M_iterate_t" => 'x',
"H5MM_allocate_t" => "x",
"H5MM_free_t" => "x",
"H5O_info_t" => "x",
@@ -149,6 +175,10 @@ $Source = "";
"H5T_cdata_t" => "x",
"H5T_conv_t" => "x",
"H5T_conv_except_func_t" => "x",
+ "H5VL_t" => "x",
+ "H5VL_class_t" => "x",
+ "H5VL_loc_params_t" => "x",
+ "H5VL_request_notify_t" => "x",
"H5Z_func_t" => "x",
"H5Z_filter_func_t" => "x",
"va_list" => "x",
@@ -297,7 +327,7 @@ sub rewrite_func ($$$$$) {
# Ignored due to NO TRACE comment.
} elsif ($body =~ s/((\n[ \t]*)H5TRACE\d+\s*\(.*?\);)\n/"$2$trace"/es) {
# Replaced an H5TRACE macro.
- } elsif ($body=~s/((\n[ \t]*)FUNC_ENTER\w*\s*(\(.*?\))?;??)\n/"$1$2$trace"/es) {
+ } elsif ($body=~s/((\n[ \t]*)FUNC_ENTER\w*[ \t]*(\(.*?\))?;??)\n/"$1$2$trace"/es) {
# Added an H5TRACE macro after a FUNC_ENTER macro.
} else {
errmesg $file, $name, "unable to insert tracing information";
diff --git a/bin/warnhist b/bin/warnhist
new file mode 100755
index 0000000..7e56246
--- /dev/null
+++ b/bin/warnhist
@@ -0,0 +1,511 @@
+#!/usr/bin/perl -w
+require 5.003;
+
+#
+# Copyright by The HDF Group.
+# All rights reserved.
+#
+# This file is part of HDF5. The full HDF5 copyright notice, including
+# terms governing use, modification, and redistribution, is contained in
+# the files COPYING and Copyright.html. COPYING can be found at the root
+# of the source code distribution tree; Copyright.html can be found at the
+# root level of an installed copy of the electronic HDF5 document set and
+# is linked from the top-level documents page. It can also be found at
+# http://hdfgroup.org/HDF5/doc/Copyright.html. If you do not have
+# access to either file, you may request a copy from help@hdfgroup.org.
+#
+# Quincey Koziol, koziol@hdfgroup.org
+# 9 Aug 2013
+#
+# Purpose: Given an input file containing the output from a build of the
+# library, gather the file names and line numbers, alias
+# identical types of warnings together into a single bin and
+# report the number of warnings for each type of warning, each file
+# and the total count of warnings
+
+# Perl modules/settings
+use strict;
+use Getopt::Std;
+
+# Global variables, for accumulating information
+my $totalcount = 0;
+my %warn_count = ();
+my $warncount;
+my %warn_file = ();
+my %warn_file_line = ();
+my %file_count = ();
+my $filecount;
+my $ignorecount = 0;
+my @ignorenames;
+my %ignored_files = ();
+my %warn_file_indices = ();
+my %file_warn_indices = ();
+my @warn_match_strings;
+my @file_match_strings;
+my %file_warn = ();
+my %file_warn_line = ();
+my $current_warning = 0;
+my $current_file = 0;
+my $warn_index;
+my $last_c_name;
+my $last_fort_name;
+my $last_fort_line;
+my $genericize = 1;
+
+# Display usage
+sub do_help {
+ print "Usage: 'warnhist [-h, --help] [-t <prefix>] [-w <n>] [-W] [-f <n>] [-F] [-s <warning string list>] [-S <file string list] [-l] [-u] [-i <name list>] [file]'\n";
+ print "\t-h, --help\tDisplay this usage\n";
+ print "\t-t <prefix>\tTrim pathname prefix from filenames, <prefix>\n";
+ print "\t-w <n>\tDisplay files for a given warning index list, <n>\n";
+ print "\t\t<n> can be a single value, a range, or a comma separated list\n";
+ print "\t\tFor example: '0' or '0,4' or '8-10' or '0,2-4,8-10,13'\n";
+ print "\t-W\tDisplay files for all warnings\n";
+ print "\t-f <n>\tDisplay warnings for a given file index list, <n>\n";
+ print "\t\t<n> can be a single value, a range, or a comma separated list\n";
+ print "\t\tFor example: '0' or '0,4' or '8-10' or '0,2-4,8-10,13'\n";
+ print "\t-F\tDisplay warnings for all files\n";
+ print "\t-s <warning string list>\tDisplay files for warnings which contain a string, <warning string list>\n";
+ print "\t\t<warning string list> is a comma separated list, with no spaces\n";
+ print "\t\tFor example: 'Wunused-dummy-argument' or 'Wunused-dummy-argument,Wunused-variable'\n";
+ print "\t-S <file string list>\tDisplay warnings for files which contain a string, <file string list>\n";
+ print "\t\t<file string list> is a comma separated list, with no spaces\n";
+ print "\t\tFor example: 'H5Fint' or 'H5Fint,H5Gnode'\n";
+ print "\t-l\tDisplay line nunbers for file/warning\n";
+ print "\t-u\tLeave 'unique' types in warnings, instead of genericizing them\n";
+ print "\t-i <name list>\tIgnore named files, <name list>\n";
+ print "\t\t<name list> is a comma separated list, with no spaces\n";
+ print "\t\tFor example: 'H5LTparse' or 'H5LTparse,H5LTanalyze'\n";
+ print "\tfile\tFilename containing build output\n";
+ print "\t\tIf no file is given, standard input is used.\n";
+ exit;
+}
+
+sub main::HELP_MESSAGE {
+ do_help();
+}
+
+# declare the Perl command line flags/options we want to allow
+my %options=();
+getopts("FWhut:w:f:s:S:i:l", \%options);
+
+# Display usage, if requested
+if($options{h}) {
+ do_help();
+}
+
+# Parse list of file names to ignore
+if(exists $options{i}) {
+ @ignorenames = split /,/, $options{i};
+#print @ignorenames;
+}
+
+# Parse list of warning indices to expand file names
+if(exists $options{w}) {
+ my @tmp_indices;
+
+ @tmp_indices = split /,/, $options{w};
+#print @tmp_indices;
+ for my $x (@tmp_indices) {
+#print "x = '$x'\n";
+ if($x =~ /\-/) {
+ my $start_index;
+ my $end_index;
+
+#print "matched = '$x'\n";
+ ($start_index, $end_index) = split /\-/, $x;
+#print "start_index = '$start_index', end_index = '$end_index'\n";
+ for my $y ($start_index..$end_index) {
+#print "y = '$y'\n";
+ if(!exists $warn_file_indices{$y}) {
+ $warn_file_indices{$y} = $y;
+ }
+ }
+ }
+ else {
+ if(!exists $warn_file_indices{$x}) {
+ $warn_file_indices{$x} = $x;
+ }
+ }
+ }
+#foreach (sort keys %warn_file_indices) {
+# print "$_ : $warn_file_indices{$_}\n";
+#}
+}
+
+# Parse list of warning strings to expand file names
+if(exists $options{s}) {
+ @warn_match_strings = split /,/, $options{s};
+# print @warn_match_strings;
+}
+
+# Parse list of file indices to expand warnings
+if(exists $options{f}) {
+ my @tmp_indices;
+
+ @tmp_indices = split /,/, $options{f};
+#print @tmp_indices;
+ for my $x (@tmp_indices) {
+#print "x = '$x'\n";
+ if($x =~ /\-/) {
+ my $start_index;
+ my $end_index;
+
+#print "matched = '$x'\n";
+ ($start_index, $end_index) = split /\-/, $x;
+#print "start_index = '$start_index', end_index = '$end_index'\n";
+ for my $y ($start_index..$end_index) {
+#print "y = '$y'\n";
+ if(!exists $file_warn_indices{$y}) {
+ $file_warn_indices{$y} = $y;
+ }
+ }
+ }
+ else {
+ if(!exists $file_warn_indices{$x}) {
+ $file_warn_indices{$x} = $x;
+ }
+ }
+ }
+#foreach (sort keys %warn_file_indices) {
+# print "$_ : $warn_file_indices{$_}\n";
+#}
+}
+
+# Parse list of warning strings for files to expand warnings
+if(exists $options{S}) {
+ @file_match_strings = split /,/, $options{S};
+# print @file_match_strings;
+}
+
+# Check if warnings should stay unique and not be "genericized"
+if($options{u}) {
+ $genericize = 0;
+}
+
+PARSE_LINES:
+while (<>) {
+ my $name;
+ my $line;
+ my $prev_line;
+ my $toss;
+ my $offset;
+ my $warning;
+ my $extra;
+ my $extra2;
+
+ # Retain last FORTRAN compile line, which comes a few lines before warning
+ if($_ =~ /.*\.[fF]90:.*/) {
+ ($last_fort_name, $last_fort_line, $toss) = split /\:/, $_;
+ ($last_fort_line, $toss) = split /\./, $last_fort_line;
+ }
+
+ # Retain last C/C++ compile line, which possibly comes a few lines before warning
+ if($_ =~ /.*[A-Za-z0-9_]\.[cC]:.*/) {
+ ($last_c_name, $toss) = split /\:/, $_;
+ }
+
+ # Skip lines that don't have the word "warning"
+ next if $_ !~ /[Ww]arning:/;
+
+ # Skip warnings from linker
+ next if $_ =~ /ld: warning:/;
+
+ # Skip warnings from build_py and install_lib
+ next if $_ =~ /warning: (build_py|install_lib)/;
+
+ # "Hide" the C++ '::' symbol until we've parsed out the parts of the line
+ while($_ =~ /\:\:/) {
+ $_ =~ s/\:\:/@@@@/g;
+ }
+
+ # Check for weird formatting of warning message
+ if($_ =~ /^cc1: warning:.*/) {
+ $name = $last_c_name;
+ $line = "??";
+ ($toss, $toss, $warning, $extra, $extra2) = split /\:/, $_;
+ # Check for CMAKE build with warning on first line and no filename
+ } elsif($_ =~ /^\s*[Ww]arning:.*/) {
+ $name = $last_c_name;
+ $line = "??";
+ ($toss, $warning, $extra, $extra2) = split /\:/, $_;
+ # Check for FORTRAN warning output
+ } elsif($_ =~ /^Warning:.*/) {
+ $name = $last_fort_name;
+ $line = $last_fort_line;
+ ($toss, $warning, $extra, $extra2) = split /\:/, $_;
+#print "1:",$.,":",$_;
+# $_ = <>;
+#print "2:",$.,":",$_;
+# if($_ =~ /^\sFC.*/) {
+# $_ = <>;
+#print "3:",$.,":",$_;
+# }
+# ($name, $line, $toss) = split /\:/, $_;
+#print "4:","'",$name,"'","-","'",$line,"'","\n";
+ # Check for improperly parsed filename or line
+ if($name =~ /^$/) {
+ print "Filename is a null string! Input line #$. is: '$_'";
+ next
+ }
+ if($line =~ /^$/) {
+ print "Line is a null string! Input line #$. is: '$_'";
+ next
+ }
+ # Check for non-GCC warning (Solaris/Oracle?)
+ } elsif($_ =~ /^\".*, line [0-9]+: *[Ww]arning:.*/) {
+ ($name, $toss, $warning, $extra, $extra2) = split /\:/, $_;
+ ($name, $line) = split /\,/, $name;
+ $name =~ s/^\"//g;
+ $name =~ s/\"$//g;
+ $line =~ s/^\s*line\s*//g;
+# print "name:'", $name, "'-'", $line, "'\n";
+# print "warning:'", $warning, "'\n";
+ } else {
+ # Check for 'character offset' field appended to file & line #
+ # (This is probably specific to GCC)
+ if($_ =~ /^.*[0-9]+\:[0-9]+\:/) {
+ ($name, $line, $offset, $toss, $warning, $extra, $extra2) = split /\:/, $_;
+ } else {
+ ($name, $line, $toss, $warning, $extra, $extra2) = split /\:/, $_;
+ }
+ }
+
+ # Check for extra ':' followed by more text in original warning string,
+ # and append the ':' and text back onto the parsed warning
+ # (Use 'length $extra' idiom to avoid warning when $extra is undefined)
+ if(length $extra ) {
+ $warning = join ':', $warning, $extra;
+ }
+ if(length $extra2 ) {
+ $warning = join ':', $warning, $extra2;
+ }
+
+ # Restore the C++ '::' symbol now that we've parsed out the parts of the line
+ while($warning =~ /@@@@/) {
+ $warning =~ s/@@@@/\:\:/g;
+ }
+
+ # Trim leading '..' paths from filename
+ while($name =~ /^\.\.\//) {
+ $name =~ s/^\.\.\///g;
+ }
+
+ # Check for trimming prefix
+ if((exists $options{t}) && ($name =~ /$options{t}/)) {
+ $name =~ s/^$options{t}\///g;
+ }
+
+ # Check for ignored file
+ if(exists $options{i}) {
+ for my $x (@ignorenames) {
+#print "x = '$x'\n";
+ if($name =~ /$x/) {
+# print "matched name = '$name'\n";
+ $ignorecount++;
+ if(!(exists $ignored_files{$name})) {
+ $ignored_files{$name} = $name;
+ }
+ next PARSE_LINES;
+ }
+ }
+ }
+
+ # Check for improperly parsed warning (usually an undefined warning string)
+ if(!defined $warning) {
+ print "Warning Undefined! Input line is: '$_'";
+ next
+ }
+
+ # Get rid of leading & trailing whitespace
+ $warning =~ s/^\s//g;
+ $warning =~ s/\s$//g;
+
+ # Check for improperly parsed warning
+ if($warning =~ /^$/) {
+ print "Warning is a null string! Input line is: '$_'";
+ next
+ }
+
+ # Convert all quotes to '
+ $warning =~ s/‘/'/g;
+ $warning =~ s/’/'/g;
+
+#
+# These skipped messages & "genericizations" may be specific to GCC
+
+ # Skip supplemental warning message
+ next if $warning =~ /near initialization for/;
+
+ # Skip C++ supplemental warning message
+ next if $warning =~ /in call to/;
+
+ # Skip GCC warning that should be a note
+ next if $_ =~ /\(this will be reported only once per input file\)/;
+
+ if($genericize) {
+ # Eliminate C/C++ "{aka <some type>}" and "{aka '<some type>'}" info
+ if($warning =~ /\s(\{|\()aka '?[A-Za-z_0-9\(\)\*\,\[\]\.\<\>\&\:\+\#]+[A-Za-z_0-9\(\)\*\,\[\]\.\<\>\&\:\+\#\ ]*'?(\}|\))/) {
+ $warning =~ s/\s(\{|\()aka '?[A-Za-z_0-9\(\)\*\,\[\]\.\<\>\&\:\+\#]+[A-Za-z_0-9\(\)\*\,\[\]\.\<\>\&\:\+\#\ ]*'?(\}|\))//g;
+ }
+
+ # Genericize C/C++ '<some type>', printf format '%<some format>', and
+ # "unknown warning group" into '-'
+ if($warning =~ /'[A-Za-z_0-9\(\)\*\,\[\]\.\<\>\&\:\+\#\-\=]+[A-Za-z_0-9\(\)\*\,\[\]\.\<\>\&\:\+\#\-\=\ ]*'/) {
+ $warning =~ s/'[A-Za-z_0-9\(\)\*\,\[\]\.\<\>\&\:\+\#\-\=]+[A-Za-z_0-9\(\)\*\,\[\]\.\<\>\&\:\+\#\-\=\ ]*'/'-'/g;
+ }
+ if($warning =~ /'%[\#0\-\ \+]*[,;\:_]?[0-9\*]*\.?[0-9\*]*[hjltzL]*[aAcdeEfFgGinosuxX]'/) {
+ $warning =~ s/'%[\#0\-\ \+]*[,;\:_]?[0-9\*]*\.?[0-9\*]*[hjltzL]*[aAcdeEfFgGinosuxX]'/'-'/g;
+ }
+
+ # Genericize C/C++ "<macro>" warnings into "-"
+ if($warning =~ /"[A-Za-z_0-9]*"/) {
+ $warning =~ s/"[A-Za-z_0-9]*"/"-"/g;
+ }
+
+ # Genericize [GCC?] C/C++ warning text about suggessted attribute
+ if($warning =~ /attribute=[A-Za-z_0-9]*\]/) {
+ $warning =~ s/=[A-Za-z_0-9]*\]/=-\]/g;
+ }
+
+ # Genericize FORTRAN "at (<n>)" into "at (-)", "REAL(<n>)" into "REAL(-)",
+ # and "INTEGER(<n>)" into "INTEGER(-)"
+ if($warning =~ /.*at\s\([0-9]+\).*/) {
+ $warning =~ s/at\s\([0-9]+\)/at \(-\)/g;
+ }
+ if($warning =~ /.*REAL\([0-9]+\).*/) {
+ $warning =~ s/REAL\([0-9]+\)/REAL\(-\)/g;
+ }
+ if($warning =~ /.*INTEGER\([0-9]+\).*/) {
+ $warning =~ s/INTEGER\([0-9]+\)/INTEGER\(-\)/g;
+ }
+
+ # Genericize standalone numbers in warnings
+ if($warning =~ /(\s|')-?[0-9]+(\s|')/) {
+ $warning =~ s/-?[0-9]+/-/g;
+ }
+
+ # Genericize unusual GCC/G++/GFORTRAN warnings that aren't handled above
+ if($warning =~ /\[deprecation\] [A-Za-z_0-9]*\([A-Za-z_,0-9]*\) in [A-Za-z_0-9]* has been deprecated.*/) {
+ $warning =~ s/[A-Za-z_0-9]*\([A-Za-z_,0-9]*\) in [A-Za-z_0-9]*/-\(-\) in -/g;
+ }
+ }
+# print "warning = $warning\n";
+# <end possible GCC-specific code>
+
+ # Check if we've already seen this warning on this line in this file
+ # (Can happen for warnings from inside header files)
+ if( !exists $warn_file_line{$warning}{$name}{$line} ) {
+ # Increment count for [generic] warning
+ $warn_count{$warning}++;
+ $warn_file{$warning}{$name}++;
+ $warn_file_line{$warning}{$name}{$line}++;
+
+ # Increment count for filename
+ $file_count{$name}++;
+ $file_warn{$name}{$warning}++;
+ $file_warn_line{$name}{$warning}{$line}++;
+
+ # Increment total count of warnings
+ $totalcount++;
+ }
+
+# print "name = $name\n";
+# print "line = $line\n";
+# print "offset = $offset\n";
+# print "warning = \"$warning\"\n";
+}
+
+print "Total unique [non-ignored] warnings: $totalcount\n";
+print "Total ignored warnings: $ignorecount\n";
+$warncount = keys %warn_count;
+print "Total unique kinds of warnings: $warncount\n";
+$filecount = keys %file_count;
+print "Total files with warnings: $filecount\n\n";
+
+# Print warnings in decreasing frequency
+print "# of Warnings by frequency (file count)\n";
+print "=======================================\n";
+for my $x (sort {$warn_count{$b} <=> $warn_count{$a}} keys(%warn_count)) {
+ printf ("[%2d] %4d (%2d) - %s\n", $current_warning++, $warn_count{$x}, scalar(keys %{$warn_file_line{$x}}), $x);
+ if((exists $options{W}) || (exists $options{w}) || (exists $options{s})) {
+ my $curr_index = $current_warning - 1;
+ my $match = 0;
+
+ # Check for string from list in current warning
+ if(exists $options{s}) {
+ for my $y (@warn_match_strings) {
+# print "y = '$y'\n";
+ if($x =~ /$y/) {
+# print "matched warning = '$x'\n";
+ $match = 1;
+ last;
+ }
+ }
+ }
+
+ # Check if current warning index matches
+ if((exists $warn_file_indices{$curr_index}) && $curr_index == $warn_file_indices{$curr_index}) {
+ $match = 1;
+ }
+
+ if($match) {
+ for my $y (sort {$warn_file{$x}{$b} <=> $warn_file{$x}{$a}} keys(%{$warn_file{$x}})) {
+ printf ("\t%4d - %s\n", $warn_file{$x}{$y}, $y);
+ if(exists $options{l}) {
+ my $lines = join ", ", sort {$a <=> $b} keys %{$warn_file_line{$x}{$y}};
+ printf("\t\tLines: $lines \n");
+ }
+ }
+ }
+ }
+}
+
+# Print warnings in decreasing frequency, by filename
+print "\n# of Warnings by filename (warning type)\n";
+print "========================================\n";
+for my $x (sort {$file_count{$b} <=> $file_count{$a}} keys(%file_count)) {
+ printf ("[%3d] %4d (%2d) - %s\n", $current_file++, $file_count{$x}, scalar(keys %{$file_warn_line{$x}}), $x);
+ if((exists $options{F}) || (exists $options{f}) || (exists $options{S})) {
+ my $curr_index = $current_file - 1;
+ my $match = 0;
+
+ # Check for string from list in current file
+ if(exists $options{S}) {
+ for my $y (@file_match_strings) {
+# print "y = '$y'\n";
+ if($x =~ /$y/) {
+# print "matched warning = '$x'\n";
+ $match = 1;
+ last;
+ }
+ }
+ }
+
+ # Check if current file index matches
+ if((exists $file_warn_indices{$curr_index}) && $curr_index == $file_warn_indices{$curr_index}) {
+ $match = 1;
+ }
+
+ if($match) {
+ for my $y (sort {$file_warn{$x}{$b} <=> $file_warn{$x}{$a}} keys(%{$file_warn{$x}})) {
+ printf ("\t%4d - %s\n", $file_warn{$x}{$y}, $y);
+ if(exists $options{l}) {
+ my $lines = join ", ", sort {$a <=> $b} keys %{$file_warn_line{$x}{$y}};
+ printf("\t\tLines: $lines \n");
+ }
+ }
+ }
+ }
+}
+
+# Print names of files that were ignored
+# Check for ignored file
+if(exists $options{i}) {
+ print "\nIgnored filenames\n";
+ print "=================\n";
+ for my $x (sort keys(%ignored_files)) {
+ print "$x\n";
+ }
+}
+