Merge pull request #1590 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:1.10/master to 1.10/masterhdf5-1_10_5

* commit '6819c11508b0610f222fe3bfe8a19f637bf4319c': (154 commits)
  CMake needs a tar.gz examples file for windows, too.
  Correct file permissions on README.txt.
  Address merge anomalies and incorrect file permissions.
  Update release date in README.txt and RELEASE.txt.
  Revisions to Platforms tested.
  Updated LT_VERS_AGE in config/lt_vers.am due to reinstatement of previously removed symbols, then ran autogen.sh to propagate so number changes and H5E_LOGFAIL_g addition to files checked in on release branch.
  Updated H5err.txt to replace a global variable that was removed during the metadata cache logging changes (to maintain binary compatibility).
  HDFFV-10552,10686 restore H5O_*1 functions
  Minor fix in h5str_sprintf for NULL region references
  Add new files to MANIFEST.
  Update so version numbers. fix 2 typos.
  Update RELEASE.txt for TRILABS-34 and remove unused sections.
  Add script for building HDF5 with CMake on HPC machines that use sbatch. Add README file for inclusion in CMake-hdf5-<version>.tar.gz file. Add updated README_HPC file with cross compile instructions.
  set version to 1.10.5-pre1. Change default build mode to production.
  Merge pull request #1560 in HDFFV/hdf5 from hdf5-1-10-documentation-only to hdf5_1_10_5
  Update HISTORY-1_10.txt and RELEASE.txt files.
  Modify RELEASE.txt in response to PR comments
  Check in files generated by autogen.sh for hdf5_1_10_5 release branch.
  Check in files generated by autogen.sh for hdf5_1_10_5 release branch. 2019/02/16.
  Code improvement
  ...

11 files changed, 175 insertions, 51 deletions

diff --git a/tools/test/misc/CMakeTestsClear.cmake b/tools/test/misc/CMakeTestsClear.cmake
index a51d0e9..c46ac59 100644
--- a/tools/test/misc/CMakeTestsClear.cmake
+++ b/tools/test/misc/CMakeTestsClear.cmake
@@ -49,8 +49,6 @@
       h5clear_missing_file.ddl
       h5clear_noclose_after_size.ddl
       h5clear_noclose_before_size.ddl
-      h5clear_no_mdc_image.ddl
-      h5clear_open_fail.ddl
       h5clear_status_noclose_after_size.ddl
       h5clear_usage.ddl
       h5clear_user_equal_after_size.ddl
@@ -60,10 +58,17 @@
       h5clear_user_less_after_size.ddl
       h5clear_user_less_before_size.ddl
   )
+  set (HDF5_REFERENCE_ERR_FILES
+      h5clear_no_mdc_image.err
+      h5clear_open_fail.err
+  )
 
   foreach (h5_file ${HDF5_TEST_FILES} ${HDF5_SEC2_TEST_FILES} ${HDF5_REFERENCE_TEST_FILES})
     HDFTEST_COPY_FILE("${PROJECT_SOURCE_DIR}/testfiles/${h5_file}" "${PROJECT_BINARY_DIR}/testfiles/${h5_file}" "h5clear_files")
   endforeach ()
+  foreach (h5_file ${HDF5_REFERENCE_ERR_FILES})
+    HDFTEST_COPY_FILE("${PROJECT_SOURCE_DIR}/testfiles/${h5_file}" "${PROJECT_BINARY_DIR}/testfiles/${h5_file}" "h5clear_files")
+  endforeach ()
   # make second copy of h5clear_sec2.h5
   foreach (h5_file ${HDF5_SEC2_TEST_FILES})
     HDFTEST_COPY_FILE("${PROJECT_SOURCE_DIR}/testfiles/${h5_file}" "${PROJECT_BINARY_DIR}/testfiles/orig_${h5_file}" "h5clear_files")
@@ -108,6 +113,35 @@
     endif ()
   endmacro ()
 
+  macro (ADD_H5_ERR_CMP testname resultfile resultcode)
+    if (NOT HDF5_ENABLE_USING_MEMCHECKER)
+      add_test (
+          NAME H5CLEAR_CMP-${testname}-clear-objects
+          COMMAND    ${CMAKE_COMMAND}
+              -E remove
+                  testfiles/${testname}.out
+                  testfiles/${testname}.out.err
+      )
+      if (NOT "${last_test}" STREQUAL "")
+        set_tests_properties (H5CLEAR_CMP-${testname}-clear-objects PROPERTIES DEPENDS ${last_test})
+      endif ()
+      add_test (
+          NAME H5CLEAR_CMP-${testname}
+          COMMAND "${CMAKE_COMMAND}"
+              -D "TEST_PROGRAM=$<TARGET_FILE:h5clear>"
+              -D "TEST_ARGS:STRING=${ARGN}"
+              -D "TEST_FOLDER=${PROJECT_BINARY_DIR}/testfiles"
+              -D "TEST_OUTPUT=${testname}.out"
+              -D "TEST_EXPECT=${resultcode}"
+              -D "TEST_REFERENCE=${resultfile}.mty"
+              -D "TEST_ERRREF=${resultfile}.err"
+              -P "${HDF_RESOURCES_EXT_DIR}/runTest.cmake"
+      )
+      set_tests_properties (H5CLEAR_CMP-${testname} PROPERTIES DEPENDS H5CLEAR_CMP-${testname}-clear-objects)
+      set (last_test "H5CLEAR_CMP-${testname}")
+    endif ()
+  endmacro ()
+
   macro (ADD_H5_CMP_WITH_COPY testname resultcode resultfile testfile)
     if (NOT HDF5_ENABLE_USING_MEMCHECKER)
       add_test (
@@ -144,6 +178,43 @@
     endif ()
   endmacro ()
 
+  macro (ADD_H5_ERR_CMP_WITH_COPY testname resultcode resultfile testfile)
+    if (NOT HDF5_ENABLE_USING_MEMCHECKER)
+      add_test (
+          NAME H5CLEAR_CMP-${testname}-clear-objects
+          COMMAND    ${CMAKE_COMMAND}
+              -E remove
+                  testfiles/${testname}.out
+                  testfiles/${testname}.out.err
+                  testfiles/${testfile}
+      )
+      if (NOT "${last_test}" STREQUAL "")
+        set_tests_properties (H5CLEAR_CMP-${testname}-clear-objects PROPERTIES DEPENDS ${last_test})
+      endif ()
+      add_test (
+          NAME H5CLEAR_CMP-copy_${testname}
+          COMMAND    ${CMAKE_COMMAND}
+              -E copy_if_different
+              "${PROJECT_SOURCE_DIR}/testfiles/${testfile}" "${PROJECT_BINARY_DIR}/testfiles/${testfile}"
+      )
+      set_tests_properties (H5CLEAR_CMP-copy_${testname} PROPERTIES DEPENDS H5CLEAR_CMP-${testname}-clear-objects)
+      add_test (
+          NAME H5CLEAR_CMP-${testname}
+          COMMAND "${CMAKE_COMMAND}"
+              -D "TEST_PROGRAM=$<TARGET_FILE:h5clear>"
+              -D "TEST_ARGS:STRING=${ARGN};${testfile}"
+              -D "TEST_FOLDER=${PROJECT_BINARY_DIR}/testfiles"
+              -D "TEST_OUTPUT=${testname}.out"
+              -D "TEST_EXPECT=${resultcode}"
+              -D "TEST_REFERENCE=${resultfile}.mty"
+              -D "TEST_ERRREF=${resultfile}.err"
+              -P "${HDF_RESOURCES_EXT_DIR}/runTest.cmake"
+      )
+      set_tests_properties (H5CLEAR_CMP-${testname} PROPERTIES DEPENDS H5CLEAR_CMP-copy_${testname})
+      set (last_test "H5CLEAR_CMP-${testname}")
+    endif ()
+  endmacro ()
+
   macro (ADD_H5_RETTEST testname resultcode)
     if (NOT HDF5_ENABLE_USING_MEMCHECKER)
       add_test (
@@ -347,11 +418,11 @@ endif()
   ADD_H5_CMP (h5clr_usage_junk h5clear_usage 1 "" junk.h5)
   ADD_H5_CMP (h5clr_usage_none h5clear_usage 1 "" orig_h5clear_sec2_v3.h5)
   ADD_H5_CMP (h5clr_missing_file_m h5clear_missing_file 1 "-m")
-  ADD_H5_CMP (h5clr_open_fail_s h5clear_open_fail 1 "-s" junk.h5)
+  ADD_H5_ERR_CMP (h5clr_open_fail_s h5clear_open_fail 1 "-s" junk.h5)
   ADD_H5_CMP (h5clr_missing_file_ms h5clear_missing_file 1 "-m" "-s")
-  ADD_H5_CMP (h5clr_open_fail_ms h5clear_open_fail 1 "-m" "-s"  junk.h5)
-  ADD_H5_CMP (h5clr_no_mdc_image_m h5clear_no_mdc_image 0 "-m" orig_h5clear_sec2_v2.h5)
-  ADD_H5_CMP (h5clr_no_mdc_image_ms h5clear_no_mdc_image 0 "-s" "-m" orig_h5clear_sec2_v0.h5)
+  ADD_H5_ERR_CMP (h5clr_open_fail_ms h5clear_open_fail 1 "-m" "-s"  junk.h5)
+  ADD_H5_ERR_CMP (h5clr_no_mdc_image_m h5clear_no_mdc_image 0 "-m" orig_h5clear_sec2_v2.h5)
+  ADD_H5_ERR_CMP (h5clr_no_mdc_image_ms h5clear_no_mdc_image 0 "-s" "-m" orig_h5clear_sec2_v0.h5)
 #
 #
 #
@@ -382,8 +453,8 @@ endif()
 #
 #
 # h5clear_mdc_image.h5 already has cache image removed earlier, verify the expected warning from h5clear:
-  ADD_H5_CMP (h5clr_mdc_image_m h5clear_no_mdc_image 0 "-m" mod_h5clear_mdc_image.h5)
-  ADD_H5_CMP (h5clr_mdc_image_sm h5clear_no_mdc_image 0 "-s" "-m" mod_h5clear_mdc_image2.h5)
+  ADD_H5_ERR_CMP (h5clr_mdc_image_m h5clear_no_mdc_image 0 "-m" mod_h5clear_mdc_image.h5)
+  ADD_H5_ERR_CMP (h5clr_mdc_image_sm h5clear_no_mdc_image 0 "-s" "-m" mod_h5clear_mdc_image2.h5)
 #
 #
 #
@@ -404,7 +475,7 @@ endif()
 # "h5clear -s --increment=0 h5clear_status_noclose.h5"  (clear status_flag, EOA = MAX(EOA, EOF) + 0)
 #                                                       (no output, check exit code)
 # "h5clear --filesize h5clear_status_noclose.h5"        (print EOA/EOF after the last action)
-  ADD_H5_CMP_WITH_COPY (h5clr_open_fail_nc_s 1 h5clear_open_fail h5clear_status_noclose.h5 "--filesize")
+  ADD_H5_ERR_CMP_WITH_COPY (h5clr_open_fail_nc_s 1 h5clear_open_fail h5clear_status_noclose.h5 "--filesize")
   ADD_H5_RETTEST (h5clr_mdc_image_nc "false" "-s" "--increment=0" h5clear_status_noclose.h5)
   ADD_H5_CMP (h5clr_no_mdc_image_nc_m h5clear_status_noclose_after_size 0 "--filesize" h5clear_status_noclose.h5)
 #
diff --git a/tools/test/misc/CMakeTestsRepart.cmake b/tools/test/misc/CMakeTestsRepart.cmake
index 37da903..8edd243 100644
--- a/tools/test/misc/CMakeTestsRepart.cmake
+++ b/tools/test/misc/CMakeTestsRepart.cmake
@@ -68,28 +68,40 @@
         scd_family00001.h5
         scd_family00002.h5
         scd_family00003.h5
+        family_to_single.h5
         family_to_sec2.h5
   )
-  if (NOT "${last_test}" STREQUAL "")
-    set_tests_properties (H5REPART-clearall-objects PROPERTIES DEPENDS ${last_test})
-  endif ()
-  set (last_test "H5REPART-clearall-objects")
+  set_tests_properties (H5REPART-clearall-objects PROPERTIES FIXTURES_SETUP clear_testrepart)
 
   # repartition family member size to 20,000 bytes.
   add_test (NAME H5REPART-h5repart_20K COMMAND $<TARGET_FILE:h5repart> -m 20000 family_file%05d.h5 fst_family%05d.h5)
-  set_tests_properties (H5REPART-h5repart_20K PROPERTIES DEPENDS H5REPART-clearall-objects)
+  set_tests_properties (H5REPART-h5repart_20K PROPERTIES
+      FIXTURES_REQUIRED clear_testrepart
+  )
 
   # repartition family member size to 5 KB.
   add_test (NAME H5REPART-h5repart_5K COMMAND $<TARGET_FILE:h5repart> -m 5k family_file%05d.h5 scd_family%05d.h5)
-  set_tests_properties (H5REPART-h5repart_5K PROPERTIES DEPENDS H5REPART-clearall-objects)
+  set_tests_properties (H5REPART-h5repart_5K PROPERTIES
+      FIXTURES_REQUIRED clear_testrepart
+  )
 
   # convert family file to sec2 file of 20,000 bytes
+  add_test (NAME H5REPART-h5repart_single COMMAND $<TARGET_FILE:h5repart> -m 20000 -family_to_single family_file%05d.h5 family_to_single.h5)
+  set_tests_properties (H5REPART-h5repart_single PROPERTIES
+      FIXTURES_REQUIRED clear_testrepart
+  )
+
+  # convert family file to sec2 file of 20,000 bytes (old argument)
   add_test (NAME H5REPART-h5repart_sec2 COMMAND $<TARGET_FILE:h5repart> -m 20000 -family_to_sec2 family_file%05d.h5 family_to_sec2.h5)
-  set_tests_properties (H5REPART-h5repart_sec2 PROPERTIES DEPENDS H5REPART-clearall-objects)
+  set_tests_properties (H5REPART-h5repart_sec2 PROPERTIES
+      FIXTURES_REQUIRED clear_testrepart
+  )
 
   # test the output files repartitioned above.
   add_test (NAME H5REPART-h5repart_test COMMAND $<TARGET_FILE:h5repart_test>)
-  set_tests_properties (H5REPART-h5repart_test PROPERTIES DEPENDS "H5REPART-clearall-objects;H5REPART-h5repart_20K;H5REPART-h5repart_5K;H5REPART-h5repart_sec2")
+  set_tests_properties (H5REPART-h5repart_test PROPERTIES
+      DEPENDS "H5REPART-h5repart_20K;H5REPART-h5repart_5K;H5REPART-h5repart_single;H5REPART-h5repart_sec2"
+  )
 
   set (H5_DEP_EXECUTABLES ${H5_DEP_EXECUTABLES}
         h5repart_test
diff --git a/tools/test/misc/Makefile.in b/tools/test/misc/Makefile.in
index c5dbe09..c0f403c 100644
--- a/tools/test/misc/Makefile.in
+++ b/tools/test/misc/Makefile.in
@@ -613,7 +613,6 @@ MAINT = @MAINT@
 MAKEINFO = @MAKEINFO@
 MANIFEST_TOOL = @MANIFEST_TOOL@
 MEMORYALLOCSANITYCHECK = @MEMORYALLOCSANITYCHECK@
-METADATATRACEFILE = @METADATATRACEFILE@
 MKDIR_P = @MKDIR_P@
 MPE = @MPE@
 NM = @NM@
@@ -647,6 +646,7 @@ PAC_FORTRAN_NUM_INTEGER_KINDS = @PAC_FORTRAN_NUM_INTEGER_KINDS@
 PARALLEL = @PARALLEL@
 PARALLEL_FILTERED_WRITES = @PARALLEL_FILTERED_WRITES@
 PATH_SEPARATOR = @PATH_SEPARATOR@
+PREADWRITE = @PREADWRITE@
 PROFILING = @PROFILING@
 RANLIB = @RANLIB@
 ROOT = @ROOT@
@@ -1602,7 +1602,7 @@ build-check-p: $(LIB) $(PROGS) $(chk_TESTS)
 	    echo "**** Hint ****";                                            \
 	    echo "Parallel test files reside in the current directory"        \
 	         "by default.";                                               \
-	    echo "Set HDF5_PARAPREFIX to use another directory. E.g.,";       \
+	    echo "Set HDF5_PARAPREFIX to use another directory. e.g.,";       \
 	    echo "    HDF5_PARAPREFIX=/PFS/user/me";                          \
 	    echo "    export HDF5_PARAPREFIX";                                \
 	    echo "    make check";                                            \
diff --git a/tools/test/misc/repart_test.c b/tools/test/misc/repart_test.c
index 4016ee8..b8e0292 100644
--- a/tools/test/misc/repart_test.c
+++ b/tools/test/misc/repart_test.c
@@ -26,12 +26,13 @@
 const char *FILENAME[] = {
     "fst_family%05d.h5",
     "scd_family%05d.h5",
+    "family_to_single.h5",
     "family_to_sec2.h5",
     NULL
 };
 
 herr_t test_family_h5repart_opens(void);
-herr_t test_sec2_h5repart_opens(void);
+herr_t test_single_h5repart_opens(void);
 
 
 /*-------------------------------------------------------------------------
@@ -90,23 +91,28 @@ error:
 
 
 /*-------------------------------------------------------------------------
- * Function:    test_sec2_h5repart_opens
+ * Function:    test_single_h5repart_opens
  *
- * Purpose:     Tries to reopen a sec2 file.
+ * Purpose:     Tries to reopen a single file.
  *
  * Return:      SUCCEED/FAIL
  *
  *-------------------------------------------------------------------------
  */
 herr_t
-test_sec2_h5repart_opens(void)
+test_single_h5repart_opens(void)
 {
     hid_t       fid = -1;
 
-    /* open the sec2 file */
+    /* open the single file */
     if ((fid = H5Fopen(FILENAME[2], H5F_ACC_RDWR, H5P_DEFAULT)) < 0)
         goto error;
+    if (H5Fclose(fid) < 0)
+        goto error;
 
+    /* open the single file (created using the old argument) */
+    if ((fid = H5Fopen(FILENAME[3], H5F_ACC_RDWR, H5P_DEFAULT)) < 0)
+        goto error;
     if (H5Fclose(fid) < 0)
         goto error;
 
@@ -119,7 +125,7 @@ error:
 
     return FAIL;
 
-} /* end test_sec2_h5repart_opens() */
+} /* end test_single_h5repart_opens() */
 
 
 /*-------------------------------------------------------------------------
@@ -137,7 +143,7 @@ main(void)
     int     nerrors = 0;
 
     nerrors += test_family_h5repart_opens() < 0     ? 1 : 0;
-    nerrors += test_sec2_h5repart_opens() < 0       ? 1 : 0;
+    nerrors += test_single_h5repart_opens() < 0     ? 1 : 0;
 
     if (nerrors)
         goto error;
@@ -150,3 +156,4 @@ error:
             nerrors, 1 == nerrors ? "" : "S");
     HDexit(EXIT_FAILURE);
 } /* end main() */
+
diff --git a/tools/test/misc/testfiles/h5clear_missing_file.ddl b/tools/test/misc/testfiles/h5clear_missing_file.ddl
index 13eb2c9..32dd549 100644
--- a/tools/test/misc/testfiles/h5clear_missing_file.ddl
+++ b/tools/test/misc/testfiles/h5clear_missing_file.ddl
@@ -20,4 +20,3 @@ h5clear --increment file_name
 
 h5clear --increment=512 file_name
   Set the EOA to the maximum of (EOA, EOF) + 512 for the file <file_name>.
-h5clear error: missing file name
diff --git a/tools/test/misc/testfiles/h5clear_missing_file.err b/tools/test/misc/testfiles/h5clear_missing_file.err
new file mode 100644
index 0000000..ea21b76
--- /dev/null
+++ b/tools/test/misc/testfiles/h5clear_missing_file.err
@@ -0,0 +1 @@
+h5clear error: missing file name
diff --git a/tools/test/misc/testfiles/h5clear_no_mdc_image.ddl b/tools/test/misc/testfiles/h5clear_no_mdc_image.err
index f5acd71..f5acd71 100644
--- a/tools/test/misc/testfiles/h5clear_no_mdc_image.ddl
+++ b/tools/test/misc/testfiles/h5clear_no_mdc_image.err
diff --git a/tools/test/misc/testfiles/h5clear_open_fail.ddl b/tools/test/misc/testfiles/h5clear_open_fail.err
index 895ecd4..895ecd4 100644
--- a/tools/test/misc/testfiles/h5clear_open_fail.ddl
+++ b/tools/test/misc/testfiles/h5clear_open_fail.err
diff --git a/tools/test/misc/testh5clear.sh.in b/tools/test/misc/testh5clear.sh.in
index 11c2ff9..3f2b32f 100644
--- a/tools/test/misc/testh5clear.sh.in
+++ b/tools/test/misc/testh5clear.sh.in
@@ -62,10 +62,10 @@ test -d $TESTDIR || mkdir -p $TESTDIR
 # copy test files and expected output files from source dirs to test dir
 #
 COPY_TESTFILES="
+$SRC_H5CLEAR_TESTFILES/h5clear_open_fail.err
+$SRC_H5CLEAR_TESTFILES/h5clear_no_mdc_image.err
 $SRC_H5CLEAR_TESTFILES/h5clear_usage.ddl
-$SRC_H5CLEAR_TESTFILES/h5clear_open_fail.ddl
 $SRC_H5CLEAR_TESTFILES/h5clear_missing_file.ddl
-$SRC_H5CLEAR_TESTFILES/h5clear_no_mdc_image.ddl
 $SRC_H5CLEAR_TESTFILES/h5clear_status_noclose_after_size.ddl
 $SRC_H5CLEAR_TESTFILES/h5clear_noclose_before_size.ddl
 $SRC_H5CLEAR_TESTFILES/h5clear_noclose_after_size.ddl
@@ -179,8 +179,9 @@ TOOLTEST_OUT() {
     expected=$5
     # Prepare expected and actual output
     expect="$TESTDIR/$expected"
+    expect_err="$TESTDIR/`basename $expected .ddl`.err"
     actual="$TESTDIR/`basename $expected .ddl`.out"
-    actual_err="$TESTDIR/`basename $expected .ddl`.err"
+    actual_err="$TESTDIR/`basename $expected .ddl`.out.err"
     actual_sav=${actual}-sav
     actual_err_sav=${actual_err}-sav
 
@@ -192,7 +193,6 @@ TOOLTEST_OUT() {
     ) >$actual 2>$actual_err
     cp $actual $actual_sav
     cp $actual_err $actual_err_sav
-    cat $actual_err >> $actual
 
     # Compare output
     COMPARE_OUT $expect $actual
@@ -202,6 +202,38 @@ TOOLTEST_OUT() {
         $RM $actual $actual_err $actual_sav $actual_err_sav
     fi
 }
+# same as TOOLTEST_OUT just compare stderr
+TOOLTEST_ERR() {
+    fname=$1
+    option1=$2
+    option2=$3
+    option3=$4
+    expected=$5
+    # Prepare expected and actual output
+    expect_err="$TESTDIR/$expected"
+    expect="$TESTDIR/`basename $expected .err`.ddl"
+    actual="$TESTDIR/`basename $expected .err`.out"
+    actual_err="$TESTDIR/`basename $expected .err`.out.err"
+    actual_sav=${actual}-sav
+    actual_err_sav=${actual_err}-sav
+
+    # Run test.
+    TESTING $H5CLEAR $option1 $option2 $option3 $option4 $fname
+    (
+        cd $TESTDIR
+        $RUNSERIAL $H5CLEAR_BIN $option1 $option2 $option3 $option4 $fname
+    ) >$actual 2>$actual_err
+    cp $actual $actual_sav
+    cp $actual_err $actual_err_sav
+
+    # Compare output
+    COMPARE_OUT $expect_err $actual_err
+
+    # Clean up output file
+    if test -z "$HDF5_NOCLEANUP"; then
+        $RM $actual $actual_err $actual_sav $actual_err_sav
+    fi
+}
 
 # $1 is the filename to open
 # $2 is the expected return from the open/check program
@@ -274,11 +306,11 @@ TOOLTEST_OUT "" "" "" "" h5clear_usage.ddl
 TOOLTEST_OUT junk.h5 "" "" "" h5clear_usage.ddl
 TOOLTEST_OUT orig_h5clear_sec2_v3.h5 "" "" "" h5clear_usage.ddl
 TOOLTEST_OUT "" -m "" "" h5clear_missing_file.ddl
-TOOLTEST_OUT junk.h5 -s "" "" h5clear_open_fail.ddl
+TOOLTEST_ERR junk.h5 -s "" "" h5clear_open_fail.err
 TOOLTEST_OUT "" -m -s "" h5clear_missing_file.ddl
-TOOLTEST_OUT junk.h5 -m -s "" h5clear_open_fail.ddl
-TOOLTEST_OUT orig_h5clear_sec2_v2.h5 -m "" "" h5clear_no_mdc_image.ddl
-TOOLTEST_OUT orig_h5clear_sec2_v0.h5 -s -m "" h5clear_no_mdc_image.ddl
+TOOLTEST_ERR junk.h5 -m -s "" h5clear_open_fail.err
+TOOLTEST_ERR orig_h5clear_sec2_v2.h5 -m "" "" h5clear_no_mdc_image.err
+TOOLTEST_ERR orig_h5clear_sec2_v0.h5 -s -m "" h5clear_no_mdc_image.err
 #
 #
 # The following are tests to verify the expected exit code from h5clear:
@@ -308,8 +340,8 @@ TOOLTEST h5clear_sec2_v0.h5 -l -m $FAIL
 #
 #
 # h5clear_mdc_image.h5 already has cache image removed earlier, verify the expected warning from h5clear:
-TOOLTEST_OUT mod_h5clear_mdc_image.h5 -m "" "" h5clear_no_mdc_image.ddl
-TOOLTEST_OUT mod_h5clear_mdc_image.h5 -s -m "" h5clear_no_mdc_image.ddl
+TOOLTEST_ERR mod_h5clear_mdc_image.h5 -m "" "" h5clear_no_mdc_image.err
+TOOLTEST_ERR mod_h5clear_mdc_image.h5 -s -m "" h5clear_no_mdc_image.err
 #
 #
 #
@@ -342,16 +374,16 @@ OPEN_CHK h5clear_sec2_v2.h5 $SUCCEED
 #
 #
 #
-# (1) h5clear_status_noclose.h5 
+# (1) h5clear_status_noclose.h5
 # "h5clear --filesize h5clear_status_noclose.h5"        (unable to open the file because status_flag is on)
-# "h5clear -s --increment=0 h5clear_status_noclose.h5"  (clear status_flag, EOA = MAX(EOA, EOF) + 0) 
+# "h5clear -s --increment=0 h5clear_status_noclose.h5"  (clear status_flag, EOA = MAX(EOA, EOF) + 0)
 #                                                       (no output, check exit code)
 # "h5clear --filesize h5clear_status_noclose_user.h5"   (print EOA/EOF after the last action)
-TOOLTEST_OUT h5clear_status_noclose.h5 --filesize "" "" h5clear_open_fail.ddl
+TOOLTEST_ERR h5clear_status_noclose.h5 --filesize "" "" h5clear_open_fail.err
 TOOLTEST h5clear_status_noclose.h5 -s --increment=0 $SUCCEED
 TOOLTEST_OUT h5clear_status_noclose.h5 --filesize "" "" h5clear_status_noclose_after_size.ddl
 #
-# (2) h5clear_fsm_persist_noclose.h5 
+# (2) h5clear_fsm_persist_noclose.h5
 # "h5clear --filesize h5clear_fsm_persist_noclose.h5"       (print EOA/EOF before the next action)
 # "h5clear --increment=0 h5clear_fsm_persist_noclose.h5"    (EOA = MAX(EOA, EOF)) (no output, check exit code)
 # "h5clear --filesize h5clear_fsm_persist_noclose.h5"       (print EOA/EOF after the last action)
@@ -364,7 +396,7 @@ TOOLTEST_OUT h5clear_fsm_persist_noclose.h5 --filesize "" "" h5clear_noclose_aft
 # "h5clear --increment h5clear_fsm_persist_equal.h5"    (EOA = MAX(EOA, EOF) + 1M) (no output, check exit code)
 # "h5clear --filesize h5clear_fsm_persist_equal.h5"     (print EOA/EOF after the last action)
 TOOLTEST_OUT h5clear_fsm_persist_equal.h5 --filesize "" "" h5clear_equal_before_size.ddl
-TOOLTEST h5clear_fsm_persist_equal.h5 --increment "" $SUCCEED 
+TOOLTEST h5clear_fsm_persist_equal.h5 --increment "" $SUCCEED
 TOOLTEST_OUT h5clear_fsm_persist_equal.h5 --filesize "" "" h5clear_equal_after_size.ddl
 #
 # (4) h5clear_fsm_persist_greater.h5
@@ -372,7 +404,7 @@ TOOLTEST_OUT h5clear_fsm_persist_equal.h5 --filesize "" "" h5clear_equal_after_s
 # "h5clear --increment=0 h5clear_fsm_persist_greater.h5"    (EOA = MAX(EOA, EOF) + 0) (no output, check exit code)
 # "h5clear --filesize h5clear_fsm_persist_greater.h5"       (print EOA/EOF after the last action)
 TOOLTEST_OUT h5clear_fsm_persist_greater.h5 --filesize "" "" h5clear_greater_before_size.ddl
-TOOLTEST h5clear_fsm_persist_greater.h5 --increment=0 "" $SUCCEED 
+TOOLTEST h5clear_fsm_persist_greater.h5 --increment=0 "" $SUCCEED
 TOOLTEST_OUT h5clear_fsm_persist_greater.h5 --filesize "" "" h5clear_greater_after_size.ddl
 #
 # (5) h5clear_fsm_persist_less.h5
@@ -380,7 +412,7 @@ TOOLTEST_OUT h5clear_fsm_persist_greater.h5 --filesize "" "" h5clear_greater_aft
 # "h5clear --increment=200 h5clear_fsm_persist_less.h5" (EOA = MAX(EOA, EOF) + 200) (no output, check exit code)
 # "h5clear --filesize h5clear_fsm_persist_less.h5"      (print EOA/EOF after the last action)
 TOOLTEST_OUT h5clear_fsm_persist_less.h5 --filesize "" "" h5clear_less_before_size.ddl
-TOOLTEST h5clear_fsm_persist_less.h5 --increment=200 "" $SUCCEED 
+TOOLTEST h5clear_fsm_persist_less.h5 --increment=200 "" $SUCCEED
 TOOLTEST_OUT h5clear_fsm_persist_less.h5 --filesize "" "" h5clear_less_after_size.ddl
 #
 # (6) h5clear_fsm_persist_user_equal.h5
@@ -388,7 +420,7 @@ TOOLTEST_OUT h5clear_fsm_persist_less.h5 --filesize "" "" h5clear_less_after_siz
 # "h5clear --increment h5clear_fsm_persist_user_equal.h5"   (EOA = MAX(EOA, EOF) + 1M) (no output, check exit code)
 # "h5clear --filesize h5clear_fsm_persist_user_equal.h5"    (print EOA/EOF after the last action)
 TOOLTEST_OUT h5clear_fsm_persist_user_equal.h5 --filesize "" "" h5clear_user_equal_before_size.ddl
-TOOLTEST h5clear_fsm_persist_user_equal.h5 --increment "" $SUCCEED 
+TOOLTEST h5clear_fsm_persist_user_equal.h5 --increment "" $SUCCEED
 TOOLTEST_OUT h5clear_fsm_persist_user_equal.h5 --filesize "" "" h5clear_user_equal_after_size.ddl
 #
 # (7) h5clear_fsm_persist_user_greater.h5
@@ -396,7 +428,7 @@ TOOLTEST_OUT h5clear_fsm_persist_user_equal.h5 --filesize "" "" h5clear_user_equ
 # "h5clear --increment=0 h5clear_fsm_persist_user_greater.h5"   (EOA = MAX(EOA, EOF) + 0) (no output, check exit code)
 # "h5clear --filesize h5clear_fsm_persist_user_greater.h5"      (print EOA/EOF after the last action)
 TOOLTEST_OUT h5clear_fsm_persist_user_greater.h5 --filesize "" "" h5clear_user_greater_before_size.ddl
-TOOLTEST h5clear_fsm_persist_user_greater.h5 --increment=0 "" $SUCCEED 
+TOOLTEST h5clear_fsm_persist_user_greater.h5 --increment=0 "" $SUCCEED
 TOOLTEST_OUT h5clear_fsm_persist_user_greater.h5 --filesize "" "" h5clear_user_greater_after_size.ddl
 #
 # (8) h5clear_fsm_persist_user_less.h5
@@ -404,7 +436,7 @@ TOOLTEST_OUT h5clear_fsm_persist_user_greater.h5 --filesize "" "" h5clear_user_g
 # "h5clear --increment=200 h5clear_fsm_persist_user_less.h5"    (EOA = MAX(EOA, EOF) + 200) (no output, check exit code)
 # "h5clear --filesize h5clear_fsm_persist_user_less.h5"         (print EOA/EOF after the last action)
 TOOLTEST_OUT h5clear_fsm_persist_user_less.h5 --filesize "" "" h5clear_user_less_before_size.ddl
-TOOLTEST h5clear_fsm_persist_user_less.h5 --increment=200 "" $SUCCEED 
+TOOLTEST h5clear_fsm_persist_user_less.h5 --increment=200 "" $SUCCEED
 TOOLTEST_OUT h5clear_fsm_persist_user_less.h5 --filesize "" "" h5clear_user_less_after_size.ddl
 #
 #
diff --git a/tools/test/misc/testh5repart.sh.in b/tools/test/misc/testh5repart.sh.in
index 594d37e..143f607 100644
--- a/tools/test/misc/testh5repart.sh.in
+++ b/tools/test/misc/testh5repart.sh.in
@@ -171,7 +171,9 @@ COPY_TESTFILES_TO_TESTDIR
 TOOLTEST -m 20000 family_file%05d.h5 fst_family%05d.h5
 # repartition family member size to 5 KB.
 TOOLTEST -m 5k family_file%05d.h5 scd_family%05d.h5
-# convert family file to sec2 file of 20,000 bytes
+# convert family file to single file of 20,000 bytes
+TOOLTEST -m 20000 -family_to_single family_file%05d.h5 family_to_single.h5
+# convert family file to single file of 20,000 bytes (old argument)
 TOOLTEST -m 20000 -family_to_sec2 family_file%05d.h5 family_to_sec2.h5
 
 # test the output files repartitioned above.
@@ -183,7 +185,7 @@ CLEAN_TESTFILES_AND_TESTDIR
 
 if test -z "$HDF5_NOCLEANUP"; then
     cd $actual_dir
-    rm -f fst_family*.h5 scd_family*.h5 family_to_sec2.h5
+    rm -f fst_family*.h5 scd_family*.h5 family_to_single.h5 family_to_sec2.h5
 fi
 
 if test $nerrors -eq 0 ; then
diff --git a/tools/test/misc/vds/Makefile.in b/tools/test/misc/vds/Makefile.in
index 56333bc..90970d8 100644
--- a/tools/test/misc/vds/Makefile.in
+++ b/tools/test/misc/vds/Makefile.in
@@ -570,7 +570,6 @@ MAINT = @MAINT@
 MAKEINFO = @MAKEINFO@
 MANIFEST_TOOL = @MANIFEST_TOOL@
 MEMORYALLOCSANITYCHECK = @MEMORYALLOCSANITYCHECK@
-METADATATRACEFILE = @METADATATRACEFILE@
 MKDIR_P = @MKDIR_P@
 MPE = @MPE@
 NM = @NM@
@@ -604,6 +603,7 @@ PAC_FORTRAN_NUM_INTEGER_KINDS = @PAC_FORTRAN_NUM_INTEGER_KINDS@
 PARALLEL = @PARALLEL@
 PARALLEL_FILTERED_WRITES = @PARALLEL_FILTERED_WRITES@
 PATH_SEPARATOR = @PATH_SEPARATOR@
+PREADWRITE = @PREADWRITE@
 PROFILING = @PROFILING@
 RANLIB = @RANLIB@
 ROOT = @ROOT@
@@ -1483,7 +1483,7 @@ build-check-p: $(LIB) $(PROGS) $(chk_TESTS)
 	    echo "**** Hint ****";                                            \
 	    echo "Parallel test files reside in the current directory"        \
 	         "by default.";                                               \
-	    echo "Set HDF5_PARAPREFIX to use another directory. E.g.,";       \
+	    echo "Set HDF5_PARAPREFIX to use another directory. e.g.,";       \
 	    echo "    HDF5_PARAPREFIX=/PFS/user/me";                          \
 	    echo "    export HDF5_PARAPREFIX";                                \
 	    echo "    make check";                                            \