datalib-ecp / vol-log-based Goto Github PK

Add 'make distcheck' to ensure no missing files in the release package.

As far as I can tell there is no "ptest" for make:

./configure.ac:AC_ARG_VAR(TESTMPIRUN, [MPI run command for "make ptest", @<:@default: mpiexec -n NP@:>@])
./configure.ac:AC_ARG_VAR(TESTOUTDIR, [Output file directory for "make check" and "make ptest", @<:@default: ./@:>@])

earlyFileClose_logvol.txt

Let's add more command-line options to h5ldump. For example,
-k to print whether the file is a regular HDF5 or a log-based.
Or even a NetCDF class file. This is similar to ncdump -k.
-H to print header only. We can add them gradually.

While running in Summit and Cori with LOG-VOL I noticed that the reported read values are incorrect when compared to not using the VOL connector. It happened in sequential and parallel runs.

*** TESTING CXX    multi_open: Creating files ----
In H5VL_log_file_open at H5VL_log_file.cpp:303: File already exist

See github action log in:
https://github.com/DataLib-ECP/vol-log-based/actions/runs/3434873711/jobs/5726602956#step:7:1643

hdf5-iotest https://github.com/brtnfld/hdf5-iotest is a performance benchmark that compares the effects of different HDF5 parameters and IO patterns. I tried it on summit with vol-log and it crashes on test #18 in H5Dwrite, #18 is output every step of rank 2 chunked arrays, with fill values on, alignment, metadata block size of 2048, using the earliest format, and MPI collective.

For the same test case on a local Linux box it worked fine.

On summit,

Currently Loaded Modules:

1. lsf-tools/2.0 3) darshan-runtime/3.3.0-lite 5) DefApps 7) zlib/1.2.11 9) spectrum-mpi/10.4.0.3-20210112 11) netlib-lapack/3.9.1 13) fftw/3.3.9 15) nsight-compute/2021.2.1 17) cuda/11.0.3
2. hsi/5.0.2.p5 4) xalt/1.2.1 6) gcc/11.1.0 8) cmake/3.21.3 10) essl/6.3.0 12) netlib-scalapack/2.1.0 14) boost/1.77.0 16) nsight-systems/2021.3.1.54 18) python/3.8-anaconda3

I used HDF5 1.13, and hdf5-iotest master. To compile hdf5-iotest:

#!/bin/bash
#autogen.sh

HDF5=$HOME/packages/hdf5-1.13/build/hdf5
export LDFLAGS="-L$HDF5/lib"
export LD_LIBRARY_PATH="$HDF5/lib:$LD_LIBRARY_PATH"
export LIBS="-lhdf5"
export CC="mpicc"
export CPPFLAGS="-I$HDF5/include"
export CFLAGS="-g"
../configure --prefix=$PWD
make 
make install

To run the program, it takes the input file "hdf5_iotest.ini"

[DEFAULT]
version = 0
steps = 10 
arrays = 10 
rows = 42 
columns = 42 
#process-rows = 1764
process-rows = 42
#process-rows = 882
process-columns = 1
# [weak, strong]
scaling = weak
# align along increment [bytes] boundaries
alignment-increment = 16777216 
# minimum object size [bytes] to force alignment (0=all objects)
alignment-threshold = 0
# minimum metadata block allocation size [bytes]
meta-block-size = 2048
# [posix, core, mpi-io-uni]
single-process = mpi-io-uni
[CUSTOM]
one-case = 18
#one-case = 119 
#gzip = 6
#szip = H5_SZIP_NN_OPTION_MASK, 8
#async = 1
#delay = 0s
hdf5-file = hdf5_iotest.h5
csv-file = hdf5_iotest.csv
#split = 1
#restart = 1

To run the program:

#!/bin/bash
###BSUB -P CSC300
#BSUB -P CSC444
#BSUB -W 01:00
# power 42
#BSUB -nnodes 1
#BSUB -J IOTEST 
#BSUB -o IOTEST.%J
#BSUB -e IOTEST.%J
##SMT1 -- 1 HW Thread per physical core
##SMT4 -- All 4 HW threads are active (Default)
##BSUB -alloc_flags smt1
# 42 physical cores, (21 each cpu), per node
# 84 per cpu, 168 total

module unload darshan-runtime

JID=$LSB_JOBID
cd $MEMBERWORK/csc444
mkdir iotest.$JID
cd iotest.$JID
EXEC=hdf5_iotest
cp $LS_SUBCWD/$EXEC .
cp $LS_SUBCWD/hdf5_iotest_000042.csv .
cp $LS_SUBCWD/hdf5_iotest.ini .
NPROCS_MAX=$(($LSB_MAX_NUM_PROCESSORS - 1))
NNODES=$(($NPROCS_MAX / 42))
echo "NUMBER OF NNODES, NPROCS_MAX = $NNODES $NPROCS_MAX"

NPROCS="42"

  HDF_DIR=$HOME/packages/hdf5-1.13/build/hdf5
  export LOGVOL_DEBUG_ABORT_ON_ERR=1
  export LD_LIBRARY_PATH="$HDF_DIR/lib:$HOME/packages/vol-log-based/build/log-vol/lib:$LD_LIBRARY_PATH"
  export HDF5_PLUGIN_PATH="$HOME/packages/vol-log-based/build/log-vol/lib"
  export HDF5_VOL_CONNECTOR="LOG under_vol=0;under_info={}"

for i in ${NPROCS}
do
  foo=$(printf "%06d" $i)
  echo "csv-file = hdf5_iotest${C}_${foo}.csv" >> hdf5_iotest.ini
  echo "process-rows = $i" >> hdf5_iotest.ini
  jsrun -n $i ./$EXEC 
  mv *.csv $LS_SUBCWD
  sed -i '$d' hdf5_iotest.ini
  sed -i '$d' hdf5_iotest.ini
  du hdf5_iotest.h5
  ls hdf5_iotest.h5
  $HOME/packages/hdf5/build/hdf5/bin/h5stat -S hdf5_iotest.h5
  #cp stdio_hdf5_iotest.${foo} $LS_SUBCWD/
#  rm -f *.h5
done

The only information I could get from the core files was:

#0 0x0000200000863618 in raise () from /lib64/power9/libc.so.6
Backtrace stopped: Cannot access memory at address 0x7fffcf4085c0

Using HDF5 1.13 and

currently Loaded Modules:

1. lsf-tools/2.0 3) darshan-runtime/3.3.0-lite 5) DefApps 7) zlib/1.2.11 9) spectrum-mpi/10.4.0.3-20210112 11) netlib-lapack/3.9.1 13) fftw/3.3.9 15) nsight-compute/2021.2.1 17) cuda/11.0.3
2. hsi/5.0.2.p5 4) xalt/1.2.1 6) gcc/11.1.0 8) cmake/3.21.3 10) essl/6.3.0 12) netlib-scalapack/2.1.0 14) boost/1.77.0 16) nsight-systems/2021.3.1.54 18) python/3.8-anaconda3

the dread test fails with the segfault below, it seems to work with one rank, this is with 2 ranks.

#0 0x0000200014f17a00 in ADIOI_GEN_WriteStrided () from /sw/summit/spack-envs/base/opt/linux-rhel8-ppc64le/gcc-11.1.0/spectrum-mpi-10.4.0.3-20210112-6kg6anupjriji6pnvijebfn7ha5vsqp2/container/../lib/spectrum_mpi/mca_io_romio321.so
#1 0x0000200014edba8c in ADIOI_GPFS_WriteStridedColl ()
from /sw/summit/spack-envs/base/opt/linux-rhel8-ppc64le/gcc-11.1.0/spectrum-mpi-10.4.0.3-20210112-6kg6anupjriji6pnvijebfn7ha5vsqp2/container/../lib/spectrum_mpi/mca_io_romio321.so
#2 0x0000200014eceda8 in MPIOI_File_write_all () from /sw/summit/spack-envs/base/opt/linux-rhel8-ppc64le/gcc-11.1.0/spectrum-mpi-10.4.0.3-20210112-6kg6anupjriji6pnvijebfn7ha5vsqp2/container/../lib/spectrum_mpi/mca_io_romio321.so
#3 0x0000200014ecf908 in mca_io_romio_dist_MPI_File_write_at_all ()
from /sw/summit/spack-envs/base/opt/linux-rhel8-ppc64le/gcc-11.1.0/spectrum-mpi-10.4.0.3-20210112-6kg6anupjriji6pnvijebfn7ha5vsqp2/container/../lib/spectrum_mpi/mca_io_romio321.so
#4 0x0000200014ec1c7c in mca_io_romio321_file_write_at_all ()
from /sw/summit/spack-envs/base/opt/linux-rhel8-ppc64le/gcc-11.1.0/spectrum-mpi-10.4.0.3-20210112-6kg6anupjriji6pnvijebfn7ha5vsqp2/container/../lib/spectrum_mpi/mca_io_romio321.so
#5 0x0000200000b08a2c in PMPI_File_write_at_all () from /sw/summit/spack-envs/base/opt/linux-rhel8-ppc64le/gcc-11.1.0/spectrum-mpi-10.4.0.3-20210112-6kg6anupjriji6pnvijebfn7ha5vsqp2/container/../lib/libmpi_ibm.so.3
#6 0x000020000009c4d8 in MPI_File_write_at_all (fh=, offset=2436, buf=0x0, count=, datatype=0x3a4abdc0, status=0x7fffe55cfb18) at lib/darshan-mpiio.c:563
#7 0x000020000017e374 in H5VL_log_filei_metaflush(H5VL_log_file_t*) () from /ccs/home/brtnfld/scratch/vol-log-based/build/src/.libs/libH5VL_log.so.0
#8 0x000020000017ab84 in H5VL_log_filei_close(H5VL_log_file_t*) () from /ccs/home/brtnfld/scratch/vol-log-based/build/src/.libs/libH5VL_log.so.0
#9 0x000020000017c3e0 in H5VL_log_filei_dec_ref(H5VL_log_file_t*) () from /ccs/home/brtnfld/scratch/vol-log-based/build/src/.libs/libH5VL_log.so.0
#10 0x000020000018780c in H5VL_log_obj_t::~H5VL_log_obj_t() () from /ccs/home/brtnfld/scratch/vol-log-based/build/src/.libs/libH5VL_log.so.0
#11 0x000020000018a920 in H5VL_log_free_wrap_ctx(void*) () from /ccs/home/brtnfld/scratch/vol-log-based/build/src/.libs/libH5VL_log.so.0
#12 0x00002000008594a4 in H5VL__free_vol_wrapper (vol_wrap_ctx=0x3a2efba0) at ../../src/H5VLint.c:2243
#13 0x000020000085c884 in H5VL_reset_vol_wrapper () at ../../src/H5VLint.c:2431
#14 0x000020000084fd88 in H5VL_file_close (vol_obj=, dxpl_id=792633534417207304, req=0x0) at ../../src/H5VLcallback.c:4163
#15 0x000020000060b9e0 in H5F__close_cb (file_vol_obj=, request=) at ../../src/H5Fint.c:216
#16 0x00002000006a388c in H5I__dec_ref (id=id@entry=72057594037927936, request=0x0) at ../../src/H5Iint.c:1036
#17 0x00002000006a3a40 in H5I__dec_app_ref (id=72057594037927936, request=) at ../../src/H5Iint.c:1108
#18 0x00002000006a3b5c in H5I_dec_app_ref (id=) at ../../src/H5Iint.c:1156
#19 0x0000200000600c3c in H5Fclose (file_id=72057594037927936) at ../../src/H5F.c:1060
#20 0x0000000010002338 in ?? ()
#21 0x0000200000e04078 in generic_start_main.isra () from /lib64/power9/libc.so.6
#22 0x0000200000e04264 in __libc_start_main () from /lib64/power9/libc.so.6
#23 0x0000000000000000 in ?? ()

@yzanhua
Tested using program, h5_write.c, from HDF5 examples, which is not an MPI program.

wget -qc https://raw.githubusercontent.com/HDFGroup/hdf5/hdf5-1_13_0/examples/h5_write.c

Run command:

export HDF5_VOL_CONNECTOR="LOG under_vol=0;under_info={}"
export HDF5_PLUGIN_PATH="../../src/.libs"
export H5VL_LOG_PASSTHRU_READ_WRITE 1
./h5_write

HDF5-DIAG: Error detected in HDF5 (1.13.3) MPI-process 0:
  #000: ../../hdf5-1.13.3/src/H5VLcallback.c line 2397 in H5VLdataset_write(): unable to write dataset
    major: Virtual Object Layer
    minor: Unable to initialize object
  #001: ../../hdf5-1.13.3/src/H5VLcallback.c line 2237 in H5VL__dataset_write(): dataset write failed
    major: Virtual Object Layer
    minor: Write failed
  #002: ../../hdf5-1.13.3/src/H5VLnative_dataset.c line 408 in H5VL__native_dataset_write(): can't write data
    major: Dataset
    minor: Write failed
  #003: ../../hdf5-1.13.3/src/H5Dio.c line 534 in H5D__write(): collective access for MPI-based driver only
    major: Dataset
    minor: Feature is unsupported
HDF5-DIAG: Error detected in HDF5 (1.13.3) MPI-process 0:
  #000: ../../hdf5-1.13.3/src/H5F.c line 1061 in H5Fclose(): decrementing file ID failed
    major: File accessibility
    minor: Unable to close file
  #001: ../../hdf5-1.13.3/src/H5Iint.c line 1156 in H5I_dec_app_ref(): can't decrement ID ref count
    major: Object ID
    minor: Unable to decrement reference count
  #002: ../../hdf5-1.13.3/src/H5Iint.c line 1108 in H5I__dec_app_ref(): can't decrement ID ref count
    major: Object ID
    minor: Unable to decrement reference count
  #003: ../../hdf5-1.13.3/src/H5Fint.c line 217 in H5F__close_cb(): unable to close file
    major: File accessibility
    minor: Unable to close file
  #004: ../../hdf5-1.13.3/src/H5VLcallback.c line 4341 in H5VL_file_close(): file close failed
    major: Virtual Object Layer
    minor: Unable to close file
  #005: ../../hdf5-1.13.3/src/H5VLcallback.c line 4310 in H5VL__file_close(): file close failed
    major: Virtual Object Layer
    minor: Unable to close file
HDF5: infinite loop closing library
      L,S_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top,T_top

If the environment variable H5VL_LOG_PASSTHRU_READ_WRITE is not set, then there is no error.
Also, if modifying the test program by adding MPI_Init, MPI_Finalize, and use collective mode file create property list, then it ran fine.

@yzanhua
Why do we need to call make clean?
To run tests for different combinations of VOL stackings, we only need to set the
proper environment variables. There should not be necessary to re-build
the Log VOL library.

Propose case studies

Summary

H5Pget_vol_cap_flags gives segmentation fault.

Details

This issue prevents us from running vol-tests. vol-tests will fail in the setup stage (before any actual tests are performed).

A test program to reproduce the problem is provided below.
However, running the test program with the Passthru VOL (provided by HDF5 group) gives the same segmentation error.
Therefore, it's possible that the root cause is outside our library.

Reproducing the issue

#include <stdlib.h>
#include <string.h>
#include "hdf5.h"

#define CHECK_ERR(A)                                             \
    {                                                            \
        if (A < 0) {                                             \
            printf ("Error at line %d: code %d\n", __LINE__, A); \
            goto err_out;                                        \
        }                                                        \
    }

hid_t get_vol_id (int argc, char **argv, int rank);

int main (int argc, char **argv) {
    herr_t err = 0;
    int rank;
    hid_t fapl_id, connector_id;
    uint64_t vol_cap_flags;

    MPI_Init (&argc, &argv);
    MPI_Comm_rank (MPI_COMM_WORLD, &rank);

    // get connector id, return one of the following:
    //      1) the id for Log VOL
    //      2) the id for the Passthru VOL (provided by HDF5 group)
    //      3) -1 (error case)
    connector_id = get_vol_id(argc, argv, rank);
    CHECK_ERR(connector_id);

    // create a file access property list
    fapl_id = H5Pcreate (H5P_FILE_ACCESS);
    CHECK_ERR (fapl_id);

    // set the underlying VOL of fapl_id
    err = H5Pset_vol(fapl_id, connector_id, NULL);
    CHECK_ERR(err);

    // get vol_cap_flags
    err = H5Pget_vol_cap_flags(fapl_id, &vol_cap_flags);  // seg fault happens inside this line

    // following codes not able to run due to the seg fault above


    CHECK_ERR (err);

err_out:;
    if (fapl_id > 0) H5Pclose (fapl_id);
    MPI_Finalize ();
    return err;
}

hid_t get_vol_id (int argc, char **argv, int rank) {
    hid_t connector_id = H5I_INVALID_HID;
    if (argc > 2) {
        if (!rank) printf ("Usage: %s [volname]\n", argv[0]);
        goto err_out;
    }
    
    // return the id for LOG VOL
    if (strcmp(argv[1], "LOG") == 0) {
        if (!rank) printf ("Using connetcor: %s\n", argv[1]);
        connector_id = H5VLregister_connector_by_name ("LOG", H5P_DEFAULT);
        CHECK_ERR (connector_id);
    } 
    
    // return the id for Passthru VOL
    else if (strcmp(argv[1], "pass_through") == 0) {
        if (!rank) printf ("Using connetcor: %s\n", argv[1]);
        connector_id = H5VL_pass_through_register();
        CHECK_ERR (connector_id);
    }

    // error case
    else {
        if (!rank) {
            printf("Not supported for this test program.");
            printf ("Using connetcor: %s\n", argv[1]);
        }
    }
err_out:;
    return connector_id;
}

HDF5=/home/HDF5/1.14.0
LOGVOL=/home/Log-Vol/install

all:
	mpicc test.c -g -o test \
	-I${HDF5}/include \
	-L${HDF5}/lib -lhdf5 -lhdf5_hl

run:
	LD_LIBRARY_PATH=${LOGVOL}/lib:${HDF5}/lib:${LD_LIBRARY_PATH} \
	HDF5_PLUGIN_PATH="${LOGVOL}/lib" \
	mpirun -n 1 ./test LOG

passthru:
	LD_LIBRARY_PATH=${HDF5}/lib:${LD_LIBRARY_PATH} \
	HDF5_PLUGIN_PATH="${HDF5}/lib" \
	mpirun -n 1 ./test pass_through

clean:
	rm -rf *.h5 core.* test

make to compile.

make run to run the test program with Log VOL.

make passthru to run the test program with the Passthru VOL (provided by HDF5 group).

gdb output, using Log VOL

gdb output, using the Passthru VOL

I'd like to push a Spack package for this VOL into the official Spack repository but the Spack maintainer will ask the version number for this software. I'd appreciate if you can tag this repo with an official version number.

When testing OpenPMD version 0.14.5 using Catch2 v2.13.4, an error of MINSIGSTKSZ no longer defined will appear.

See #45 (comment)
and openPMD/openPMD-api#1342

See the artifact from my GitHub Action [1].

FAIL: null_req
==============

*** TESTING CXX    null_req: Call H5Dwrite with empty selection
HDF5-DIAG: Error detected in HDF5 (1.13.0-7) MPI-process 0:
  #000: H5VL.c line 87 in H5VLregister_connector(): library initialization failed
    major: Function entry/exit
    minor: Unable to initialize object
  #001: H5.c line 279 in H5_init_library(): unable to initialize vol interface
    major: Function entry/exit
    minor: Unable to initialize object
  #002: H5VLint.c line 198 in H5VL_init_phase2(): unable to set default VOL connector
    major: Virtual Object Layer
    minor: Can't set value
  #003: H5VLint.c line 440 in H5VL__set_def_conn(): can't register connector
    major: Virtual Object Layer
    minor: Unable to register new ID
  #004: H5VLint.c line 1372 in H5VL__register_connector_by_name(): unable to load VOL connector
    major: Virtual Object Layer
    minor: Unable to initialize object
HDF5-DIAG: Error detected in HDF5 (1.13.0-7) MPI-process 0:
  #000: H5Pfapl.c line 6114 in H5Pset_vol(): not a file VOL ID
    major: Invalid arguments to routine
    minor: Inappropriate type
HDF5-DIAG: Error detected in HDF5 (1.13.0-7) MPI-process 0:
  #000: H5D.c line 1225 in H5Dwrite(): can't synchronously write data
    major: Dataset
    minor: Write failed
  #001: H5D.c line 1172 in H5D__write_api_common(): can't write data
    major: Dataset
    minor: Write failed
  #002: H5VLcallback.c line 2181 in H5VL_dataset_write(): dataset write failed
    major: Virtual Object Layer
    minor: Write failed
  #003: H5VLcallback.c line 2148 in H5VL__dataset_write(): dataset write failed
    major: Virtual Object Layer
    minor: Write failed
  #004: H5VLnative_dataset.c line 345 in H5VL__native_dataset_write(): can't write data
    major: Dataset
    minor: Write failed
  #005: H5Dio.c line 374 in H5D__write(): src and dest dataspaces have different number of elements selected
    major: Invalid arguments to routine
    minor: Bad value
Error at line 69 in null_req.cpp:
fail with 1 mismatches.
FAIL null_req (exit status: 1)

[1] https://github.com/hyoklee/vol-log-based/actions/runs/1397442070

Looks like it is calling the native VOL instead of the LOG VOLs when trying to open the dataset.

All the binaries and scripts are on summit login4 in qmcpack/build_summit_cpu/bin to reproduce.

HDF5-DIAG: Error detected in HDF5 (1.13.0) MPI-process 0:
#000: ../../src/H5VLcallback.c line 4406 in H5VLgroup_open(): unable to open group
major: Virtual Object Layer
minor: Unable to initialize object
#1: ../../src/H5VLcallback.c line 4335 in H5VL__group_open(): group open failed
major: Virtual Object Layer
minor: Can't open object
#2: ../../src/H5VLnative_group.c line 154 in H5VL__native_group_open(): unable to open group
major: Symbol table
minor: Can't open object
#3: ../../src/H5Gint.c line 397 in H5G__open_name(): group not found
major: Symbol table
minor: Object not found
#4: ../../src/H5Gloc.c line 439 in H5G_loc_find(): can't find object
major: Symbol table
minor: Object not found
#5: ../../src/H5Gtraverse.c line 838 in H5G_traverse(): internal path traversal failed
major: Symbol table
minor: Object not found
#6: ../../src/H5Gtraverse.c line 614 in H5G__traverse_real(): traversal operator failed
major: Symbol table
minor: Callback failed
#7: ../../src/H5Gloc.c line 396 in H5G__loc_find_cb(): object 'state_0' doesn't exist
major: Symbol table
minor: Object not found
HDF5-DIAG: Error detected in HDF5 (1.13.0) MPI-process 0:
#000: ../../src/H5VLcallback.c line 2016 in H5VLdataset_open(): unable to open dataset
major: Virtual Object Layer
minor: Can't open object
#1: ../../src/H5VLcallback.c line 1945 in H5VL__dataset_open(): dataset open failed
major: Virtual Object Layer
minor: Can't open object
#2: ../../src/H5VLnative_dataset.c line 252 in H5VL__native_dataset_open(): unable to open dataset
major: Dataset
minor: Can't open object
#3: ../../src/H5Dint.c line 1437 in H5D__open_name(): not found
major: Dataset
minor: Object not found
#4: ../../src/H5Gloc.c line 439 in H5G_loc_find(): can't find object
major: Symbol table
minor: Object not found
#5: ../../src/H5Gtraverse.c line 838 in H5G_traverse(): internal path traversal failed
major: Symbol table
minor: Object not found
#6: ../../src/H5Gtraverse.c line 614 in H5G__traverse_real(): traversal operator failed
major: Symbol table
minor: Callback failed
#7: ../../src/H5Gloc.c line 396 in H5G__loc_find_cb(): object 'nprocs_nthreads_statesize' doesn't exist
major: Symbol table
minor: Object not found

The previous commit [1] compiled fine but the latest doesn't:

     336     #include "H5VL_logi_profiling.hpp"
     337              ^~~~~~~~~~~~~~~~~~~~~~~~~
     338    compilation terminated.

I tested it on Linux 3.10.0-1160.24.1.el7.x86_64 #1 SMP Thu Apr 8 19:51:47 UTC 2021 x86_64 x86_64 x86_64 GNU/Linux.

[1] b13778e

This code block is problematic.

1. strncpy cannot copy more than strlen(name) from name.
2. How is ret freed latter if name[0] == '_' ?

The Autotools configure assume in-source builds, for out-of-source builds, it can not find the m4 files.

Making all in src
make[2]: Entering directory '/autofs/nccs-svm1_home1/brtnfld/packages/vol-log-based/build/src'
m4 -I../../m4 ../../src/H5VL_logi_profiling.m4h >H5VL_logi_profiling.hpp
m4:../../src/H5VL_logi_profiling.m4h:16: cannot open `H5VL_logi_profiling_timers.m4': No such file or directory

I suspect this line may fail when doing VPATH build.