[netcdf-c] Build error on x64-linux

[brucemdietrich]

On an Alpine Linux image I am trying to install netcdf-c with vcpkg and am getting an error. The OS is description:

[ 5/17] RUN cat /etc/os-release
0.423 NAME="Alpine Linux"
0.423 ID=alpine
0.423 VERSION_ID=3.20.1
0.423 PRETTY_NAME="Alpine Linux v3.20"
0.423 HOME_URL="https://alpinelinux.org/"
0.423 BUG_REPORT_URL="https://gitlab.alpinelinux.org/alpine/aports/-/issues"

Some of the installs before running:
RUN apk add build-base cmake zip unzip curl git libtool libzip zlib perl clang ninja-is-really-ninja linux-headers pkgconfig bash autoconf tzdata automake python3

RUN /tmp/vcpkg/vcpkg update
RUN /tmp/vcpkg/vcpkg upgrade

RUN /tmp/vcpkg/vcpkg install vcpkg-cmake
RUN /tmp/vcpkg/vcpkg install vcpkg-cmake-config
RUN /tmp/vcpkg/vcpkg install vcpkg-pkgconfig-get-modules

RUN /tmp/vcpkg/vcpkg install netcdf-c

Error report below:

Package: netcdf-c[core,dap,hdf5,nczarr,netcdf-4]:x86-linux@4.8.1#5

Host Environment

• Host: x86-linux
• Compiler: GNU 14.2.0
• vcpkg-tool version: 2999-12-31-unknownhash
  vcpkg-scripts version: 2dc91c6 2024-12-17 (28 hours ago)

To Reproduce

vcpkg install netcdf-c

...
Installing 7/7 netcdf-c[core,dap,hdf5,nczarr,netcdf-4]:x64-linux@4.8.1#4...
Building netcdf-c[core,dap,hdf5,nczarr,netcdf-4]:x64-linux@4.8.1#4...
...
Failure logs

-- Using cached Unidata-netcdf-c-cd6173f472b778fa0e558982c59f7183aa5b8e47.tar.gz.
-- Cleaning sources at /tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean. Use --editable to skip cleaning for the packages you specify.
-- Extracting source /tmp/vcpkg/downloads/Unidata-netcdf-c-cd6173f472b778fa0e558982c59f7183aa5b8e47.tar.gz
-- Applying patch no-install-deps.patch
-- Applying patch fix-dependency-zlib.patch
-- Applying patch use_targets.patch
-- Applying patch fix-dependency-libmath.patch
-- Applying patch fix-linkage-error.patch
-- Applying patch fix-manpage-msys.patch
-- Applying patch fix-dependency-libzip.patch
-- Applying patch fix-dependency-mpi.patch
-- Applying patch fix-pkgconfig.patch
-- Using source at /tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean
-- Configuring x86-linux-dbg
-- Configuring x86-linux-rel
-- Building x86-linux-dbg
CMake Error at scripts/cmake/vcpkg_execute_build_process.cmake:134 (message):
    Command failed: /usr/bin/cmake --build . --config Debug --target install -- -v -j2
    Working Directory: /tmp/vcpkg/buildtrees/netcdf-c/x86-linux-dbg
    See logs for more information:
      /tmp/vcpkg/buildtrees/netcdf-c/install-x86-linux-dbg-out.log

Call Stack (most recent call first):
  installed/x86-linux/share/vcpkg-cmake/vcpkg_cmake_build.cmake:74 (vcpkg_execute_build_process)
  installed/x86-linux/share/vcpkg-cmake/vcpkg_cmake_install.cmake:16 (vcpkg_cmake_build)
  ports/netcdf-c/portfile.cmake:79 (vcpkg_cmake_install)
  scripts/ports.cmake:196 (include)


I have a copy of the above log file:  /tmp/vcpkg/buildtrees/netcdf-c/install-x86-linux-dbg-out.log  but it is long and not very informative.  The tail end of the file is here:

/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/libhdf5/hdf5filter.c:569:56: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion]
  569 |         if(spec->flags & NC_HDF5_FILTER_MISSING) {id = spec->filterid; break;}
      |                                                        ^~~~
/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/libhdf5/hdf5filter.c:571:20: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion]
  571 |     if(idp) *idp = id;
      |                    ^~
ninja: build stopped: subcommand failed.

[brucemdietrich]

earlier in the log file I see this error:

[91/171] /usr/bin/cc -DENABLE_SET_LOG_LEVEL -DH5_BUILT_AS_STATIC_LIB -DHAVE_CONFIG_H -DRELAX_COORD_BOUND -I/tmp/vcpkg/buildtrees/netcdf-c/x86-linux-dbg/include -I/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/include -I/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/oc2 -I/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/libsrc -I/tmp/vcpkg/installed/x86-linux/include -I/tmp/vcpkg/buildtrees/netcdf-c/x86-linux-dbg -fPIC -m32 -fno-strict-aliasing -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -g -Wall -Wconversion -MD -MT libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5debug.c.o -MF libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5debug.c.o.d -o libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5debug.c.o -c /tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/libhdf5/hdf5debug.c
FAILED: libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5debug.c.o
/usr/bin/cc -DENABLE_SET_LOG_LEVEL -DH5_BUILT_AS_STATIC_LIB -DHAVE_CONFIG_H -DRELAX_COORD_BOUND -I/tmp/vcpkg/buildtrees/netcdf-c/x86-linux-dbg/include -I/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/include -I/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/oc2 -I/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/libsrc -I/tmp/vcpkg/installed/x86-linux/include -I/tmp/vcpkg/buildtrees/netcdf-c/x86-linux-dbg -fPIC -m32 -fno-strict-aliasing -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -g -Wall -Wconversion -MD -MT libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5debug.c.o -MF libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5debug.c.o.d -o libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5debug.c.o -c /tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/libhdf5/hdf5debug.c
/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/libhdf5/hdf5debug.c:9:10: fatal error: execinfo.h: No such file or directory
9 | #include <execinfo.h>
| ^~~~~~~~~~~~
compilation terminated.
[92/171] /usr/bin/cc -DENABLE_SET_LOG_LEVEL -DH5_BUILT_AS_STATIC_LIB -DHAVE_CONFIG_H -DRELAX_COORD_BOUND -I/tmp/vcpkg/buildtrees/netcdf-c/x86-linux-dbg/include -I/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/include -I/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/oc2 -I/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/libsrc -I/tmp/vcpkg/installed/x86-linux/include -I/tmp/vcpkg/buildtrees/netcdf-c/x86-linux-dbg -fPIC -m32 -fno-strict-aliasing -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -g -Wall -Wconversion -MD -MT libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5filter.c.o -MF libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5filter.c.o.d -o libhdf5/CMakeFiles/netcdfhdf5.dir/hdf5filter.c.o -c /tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/libhdf5/hdf5filter.c
In file included from /tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/include/ncindex.h:16,
from /tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/include/nc4internal.h:22,
from /tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/include/hdf5internal.h:17,
from /tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/libhdf5/hdf5filter.c:17:
/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/libhdf5/hdf5filter.c: In function 'NC4_hdf5_filter_freelist':
/tmp/vcpkg/buildtrees/netcdf-c/src/83aa5b8e47-10b35fdabd.clean/include/nclist.h:63:26: warning: conversion to 'int' from 'size_t' {aka 'unsigned int'} may change the sign of the result [-Wsign-conversion]

[brucemdietrich]

I found something that works at this location:
aws/aws-lambda-nodejs-runtime-interface-client#68 (comment)

If I add the following, then it builds:
apk add --no-cache --update --repository=https://dl-cdn.alpinelinux.org/alpine/v3.16/main/ libexecinfo-dev

It doesn't sound like an optimal solution. If there is a better way to get this to build, I would like to know.