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Last active November 25, 2024 17:17
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build-log-without-fPIC.txt
Script started on 2024-11-24 17:25:16+00:00 [TERM="screen.xterm-256color" TTY="/dev/pts/1" COLUMNS="120" LINES="67"]
?2004h
1;38;5;208mubuntu1;38;5;94m@1;38;5;208manzo1;38;5;94m[prod][troubleshoot-cpp20][tiledbsoma-feedstock]$ 0mK./build-locally.py
validlconfigs are {'linux_64_', 'osx_64_', 'osx_arm64_'}
config not selected, please choose from the following:
1. linux_64_
2. osx_64_
3. osx_arm64_
> 1
selected linux_64_
Configure Docker
+++ dirname .scripts/run_docker_build.sh
++ cd .scripts
++ pwd
+ THISDIR=/home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock/.scripts
++ basename /home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock/.scripts
+ PROVIDER_DIR=.scripts
+++ dirname .scripts/run_docker_build.sh
++ cd .scripts/..
++ pwd
+ FEEDSTOCK_ROOT=/home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock
+ RECIPE_ROOT=/home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock/recipe
+ '[' -z ']'
++ basename /home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock
+ export FEEDSTOCK_NAME=tiledbsoma-feedstock
+ FEEDSTOCK_NAME=tiledbsoma-feedstock
+ [[ '' == '' ]]
+ pushd /home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock
~/git/TileDB-Inc/tiledbsoma-feedstock ~/git/TileDB-Inc/tiledbsoma-feedstock
++ git rev-parse HEAD
+ sha=fac4c8d9fafc67d8552711eef88ba37e6f48f0f7
+ popd
~/git/TileDB-Inc/tiledbsoma-feedstock
+ docker info
Client:
Version: 27.2.0
Context: default
Debug Mode: false
Plugins:
buildx: Docker Buildx (Docker Inc.)
Version: v0.16.1
Path: /usr/libexec/docker/cli-plugins/docker-buildx
compose: Docker Compose (Docker Inc.)
Version: v2.20.3
Path: /usr/libexec/docker/cli-plugins/docker-compose
Server:
Containers: 16
Running: 0
Paused: 0
Stopped: 16
Images: 28
Server Version: 27.2.0
Storage Driver: overlay2
Backing Filesystem: extfs
Supports d_type: true
Using metacopy: false
Native Overlay Diff: true
userxattr: false
Logging Driver: json-file
Cgroup Driver: systemd
Cgroup Version: 2
Plugins:
Volume: local
Network: bridge host ipvlan macvlan null overlay
Log: awslogs fluentd gcplogs gelf journald json-file local splunk syslog
Swarm: inactive
Runtimes: io.containerd.runc.v2 runc
Default Runtime: runc
Init Binary: docker-init
containerd version: 472731909fa34bd7bc9c087e4c27943f9835f111
runc version:
init version: de40ad0
Security Options:
apparmor
seccomp
Profile: builtin
cgroupns
Kernel Version: 6.8.0-1019-aws
Operating System: Ubuntu Core 22
OSType: linux
Architecture: x86_64
CPUs: 16
Total Memory: 62.1GiB
Name: ip-172-31-18-197
ID: dd36c892-9b72-49ca-853c-ff220a13c19b
Docker Root Dir: /var/snap/docker/common/var-lib-docker
Debug Mode: false
Experimental: false
Insecure Registries:
127.0.0.0/8
Live Restore Enabled: false
++ id -u
+ export HOST_USER_ID=1000
+ HOST_USER_ID=1000
+ hash docker-machine
+ ARTIFACTS=/home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock/build_artifacts
+ '[' -z linux_64_ ']'
+ '[' -z '' ']'
++ shyaml -h
.scripts/run_docker_build.sh: line 56: shyaml: command not found
++ echo NO
+ SHYAML_INSTALLED=NO
+ '[' NO == NO ']'
+ echo 'WARNING: DOCKER_IMAGE variable not set and shyaml not installed. Trying to parse with coreutils'
WARNING: DOCKER_IMAGE variable not set and shyaml not installed. Trying to parse with coreutils
++ cat .ci_support/linux_64_.yaml
++ grep '^docker_image:$' -A 1
++ tail -n 1
++ cut -b 3-
+ DOCKER_IMAGE=quay.io/condaforge/linux-anvil-cos7-x86_64
+ '[' quay.io/condaforge/linux-anvil-cos7-x86_64 = '' ']'
+ mkdir -p /home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock/build_artifacts
+ DONE_CANARY=/home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock/build_artifacts/conda-forge-build-done-linux_64_
+ rm -f /home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock/build_artifacts/conda-forge-build-done-linux_64_
+ DOCKER_RUN_ARGS=
+ '[' -z force ']'
Start Docker
+ export UPLOAD_PACKAGES=False
+ UPLOAD_PACKAGES=False
+ export IS_PR_BUILD=True
+ IS_PR_BUILD=True
+ docker pull quay.io/condaforge/linux-anvil-cos7-x86_64
Using default tag: latest
latest: Pulling from condaforge/linux-anvil-cos7-x86_64
Digest: sha256:a6cc80d8de99955de897da4fb878be59fc2cfd35501d9316a76d2b48d8d1b745
Status: Image is up to date for quay.io/condaforge/linux-anvil-cos7-x86_64:latest
quay.io/condaforge/linux-anvil-cos7-x86_64:latest
+ docker run -v /home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock/recipe:/home/conda/recipe_root:rw,z,delegated -v /home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock:/home/conda/feedstock_root:rw,z,delegated -e CONFIG -e HOST_USER_ID -e UPLOAD_PACKAGES -e IS_PR_BUILD -e GIT_BRANCH -e UPLOAD_ON_BRANCH -e CI -e FEEDSTOCK_NAME -e CPU_COUNT -e BUILD_WITH_CONDA_DEBUG -e BUILD_OUTPUT_ID -e flow_run_id -e remote_url -e sha -e BINSTAR_TOKEN quay.io/condaforge/linux-anvil-cos7-x86_64 bash /home/conda/feedstock_root/.scripts/build_steps.sh
bash: cannot set terminal process group (-1): Inappropriate ioctl for device
bash: no job control in this shell
useradd: warning: the home directory already exists.
Not copying any file from skel directory into it.
+ export FEEDSTOCK_ROOT=/home/conda/feedstock_root
+ FEEDSTOCK_ROOT=/home/conda/feedstock_root
+ source /home/conda/feedstock_root/.scripts/logging_utils.sh
Configuring conda
+ export PYTHONUNBUFFERED=1
+ PYTHONUNBUFFERED=1
+ export RECIPE_ROOT=/home/conda/recipe_root
+ RECIPE_ROOT=/home/conda/recipe_root
+ export CI_SUPPORT=/home/conda/feedstock_root/.ci_support
+ CI_SUPPORT=/home/conda/feedstock_root/.ci_support
+ export CONFIG_FILE=/home/conda/feedstock_root/.ci_support/linux_64_.yaml
+ CONFIG_FILE=/home/conda/feedstock_root/.ci_support/linux_64_.yaml
+ cat
++ date +%Y-%m-%d-%H-%M-%S
+ mv /opt/conda/conda-meta/history /opt/conda/conda-meta/history.2024-11-24-17-25-23
+ echo
+ micromamba install --root-prefix /home/conda/.conda --prefix /opt/conda --yes --override-channels --channel conda-forge --strict-channel-priority pip python=3.12 conda-build conda-forge-ci-setup=4 'conda-build>=24.1'
warning libmamba Cache file "/home/conda/feedstock_root/build_artifacts/pkg_cache/cache/497deca9.json" was modified by another program
warning libmamba Cache file "/home/conda/feedstock_root/build_artifacts/pkg_cache/cache/09cdf8bf.json" was modified by another program
Pinned packages:
- su-exec 0.2
- tini 0.19.0
Transaction
Prefix: /opt/conda
Updating specs:
- pip
- python=3.12
- conda-build
- conda-forge-ci-setup=4
- conda-build[version='>=24.1']
Package Version Build Channel Size
─────────────────────────────────────────────────────────────────────────────────────
Install:
─────────────────────────────────────────────────────────────────────────────────────
+ ruamel_yaml 0.15.80 py312h98912ed_1009 conda-forge Cached
+ oniguruma 6.9.9 hd590300_0 conda-forge Cached
+ rattler-build 0.31.1 h51b9b6e_0 conda-forge Cached
+ wrapt 1.16.0 py312h66e93f0_1 conda-forge Cached
+ jq 1.7.1 hd590300_0 conda-forge Cached
+ conda-env 2.6.0 1 conda-forge Cached
+ joblib 1.4.2 pyhd8ed1ab_0 conda-forge Cached
+ shyaml 0.6.2 pyhd3deb0d_0 conda-forge Cached
+ typing_extensions 4.12.2 pyha770c72_0 conda-forge Cached
+ tomli 2.1.0 pyhff2d567_0 conda-forge Cached
+ oras-py 0.1.14 pyhd8ed1ab_0 conda-forge Cached
+ deprecated 1.2.15 pyhff2d567_0 conda-forge Cached
+ typing-extensions 4.12.2 hd8ed1ab_0 conda-forge Cached
+ conda-oci-mirror 0.2.1 pyhd8ed1ab_0 conda-forge Cached
+ rattler-build-conda-compat 1.2.2 pyhd8ed1ab_0 conda-forge Cached
+ conda-forge-metadata 0.11.0 pyhd8ed1ab_0 conda-forge Cached
+ conda-forge-ci-setup 4.12.2 py312hb3d6910_100 conda-forge Cached
Summary:
Install: 17 packages
Total download: 0 B
─────────────────────────────────────────────────────────────────────────────────────
Transaction starting
Transaction finished
To activate this environment, use:
micromamba activate /opt/conda
Or to execute a single command in this environment, use:
micromamba run -p /opt/conda mycommand
+ export CONDA_LIBMAMBA_SOLVER_NO_CHANNELS_FROM_INSTALLED=1
+ CONDA_LIBMAMBA_SOLVER_NO_CHANNELS_FROM_INSTALLED=1
+ setup_conda_rc /home/conda/feedstock_root /home/conda/recipe_root /home/conda/feedstock_root/.ci_support/linux_64_.yaml
/opt/conda/lib/python3.12/site-packages/conda_forge_ci_setup/build_utils.py:220: SyntaxWarning: invalid escape sequence '\S'
allowed_channels = ["conda-forge", "conda-forge/label/\S+"]
/opt/conda/lib/python3.12/site-packages/conda/base/context.py:198: FutureWarning: Adding 'defaults' to channel list implicitly is deprecated and will be removed in 25.3.
To remove this warning, please choose a default channel explicitly with conda's regular configuration system, e.g. by adding 'defaults' to the list of channels:
conda config --add channels defaults
For more information see https://docs.conda.io/projects/conda/en/stable/user-guide/configuration/use-condarc.html
deprecated.topic(
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 58, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 62, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 66, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 70, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 74, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 78, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 82, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 86, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 90, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 94, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 98, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 102, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 106, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 110, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 114, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 58, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 62, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 66, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 70, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 74, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 78, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 82, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 86, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 90, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 94, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 98, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 102, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 106, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 110, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 114, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
+ source run_conda_forge_build_setup
++ export PYTHONUNBUFFERED=1
++ PYTHONUNBUFFERED=1
++ conda config --env --set show_channel_urls true
++ conda config --env --set auto_update_conda false
++ conda config --env --set add_pip_as_python_dependency false
++ conda config --env --append aggressive_update_packages ca-certificates
++ conda config --env --remove-key aggressive_update_packages
++ conda config --env --append aggressive_update_packages ca-certificates
++ conda config --env --append aggressive_update_packages certifi
++ export CONDA_BLD_PATH=/home/conda/feedstock_root/build_artifacts
++ CONDA_BLD_PATH=/home/conda/feedstock_root/build_artifacts
++ set +u
++ [[ force == \d\r\o\n\e ]]
++ [[ force == \g\i\t\h\u\b\_\a\c\t\i\o\n\s ]]
++ export CPU_COUNT=2
++ CPU_COUNT=2
+++ cat /home/conda/feedstock_root/conda-forge.yml
+++ shyaml get-value channel_priority strict
++ conda config --env --set channel_priority strict
++ [[ ! -z '' ]]
++ '[' '!' -z linux_64_ ']'
++ '[' '!' -z force ']'
++ echo ''
++ echo CI:
++ echo '- force'
++ echo ''
++ cat /home/conda/feedstock_root/.ci_support/linux_64_.yaml
c_compiler:
- gcc
c_compiler_version:
- '13'
c_stdlib:
- sysroot
c_stdlib_version:
- '2.17'
cdt_name:
- conda
channel_sources:
- conda-forge,tiledb
channel_targets:
- tiledb main
cxx_compiler:
- gxx
cxx_compiler_version:
- '13'
docker_image:
- quay.io/condaforge/linux-anvil-cos7-x86_64
fmt:
- '11'
numpy:
- '2.0'
- '2.0'
- '2.0'
- '2.0'
pin_run_as_build:
python:
min_pin: x.x
max_pin: x.x
r-base:
min_pin: x.x
max_pin: x.x
python:
- 3.10.* *_cpython
- 3.11.* *_cpython
- 3.12.* *_cpython
- 3.9.* *_cpython
r_base:
- '4.3'
spdlog:
- '1.14'
target_platform:
- linux-64
tiledb:
- '2.26'
zip_keys:
- - c_compiler_version
- cxx_compiler_version
- - python
- numpy
CI:
- force
CI:
- force
CI:
- force
CI:
- force
CI:
- force
CI:
- force
CI:
- force
CI:
- force
CI:
- force
CI:
- force
CI:
- force
CI:
- force
CI:
- force
CI:
- force
CI:
- force
CI:
- force
CI:
- force
++ set -u
++ mkdir -p /opt/conda/etc/conda/activate.d
++ echo 'export CONDA_BLD_PATH='\''/home/conda/feedstock_root/build_artifacts'\'''
++ '[' -n 2 ']'
++ echo 'export CPU_COUNT='\''2'\'''
++ echo 'export PYTHONUNBUFFERED='\''1'\'''
+++ cat /home/conda/feedstock_root/.ci_support/linux_64_.yaml
+++ shyaml get-value cuda_compiler_version.0 None
++ CUDA_VERSION=None
++ [[ None != \N\o\n\e ]]
++++ dirname /opt/conda/bin/run_conda_forge_build_setup
+++ cd /opt/conda/bin
+++ pwd
++ SCRIPT_DIR=/opt/conda/bin
++ source /opt/conda/bin/cross_compile_support.sh
++++ conda info --json
++++ jq -r .platform
+++ BUILD_PLATFORM=linux-64
+++ '[' -f /home/conda/feedstock_root/.ci_support/linux_64_.yaml ']'
++++ cat /home/conda/feedstock_root/.ci_support/linux_64_.yaml
++++ shyaml get-value target_platform.0 linux-64
+++ HOST_PLATFORM=linux-64
++++ cat /home/conda/feedstock_root/.ci_support/linux_64_.yaml
++++ shyaml get-value cuda_compiler_version.0 None
+++ CUDA_COMPILER_VERSION=None
++++ cat /home/conda/feedstock_root/.ci_support/linux_64_.yaml
++++ shyaml get-value c_stdlib_version.0 2.17
+++ GLIBC_VERSION=2.17
+++ HOST_PLATFORM=linux-64
+++ CUDA_COMPILER_VERSION=None
+++ GLIBC_VERSION=2.17
+++ [[ linux-64 != \l\i\n\u\x\-\6\4 ]]
++ '[' -f /home/conda/feedstock_root/.ci_support/linux_64_.yaml ']'
+++ cat /home/conda/feedstock_root/.ci_support/linux_64_.yaml
+++ shyaml get-value MACOSX_DEPLOYMENT_TARGET.0 0
++ need_osx_sdk=0
++ [[ 0 != \0 ]]
++ conda info
active environment : base
active env location : /opt/conda
shell level : 1
user config file : /home/conda/.condarc
populated config files : /opt/conda/.condarc
/home/conda/.condarc
conda version : 24.9.2
conda-build version : 24.9.0
python version : 3.12.7.final.0
solver : libmamba (default)
virtual packages : __archspec=1=skylake_avx512
__conda=24.9.2=0
__glibc=2.17=0
__linux=6.8.0=0
__unix=0=0
base environment : /opt/conda (writable)
conda av data dir : /opt/conda/etc/conda
conda av metadata url : None
channel URLs : https://conda.anaconda.org/conda-forge/linux-64
https://conda.anaconda.org/conda-forge/noarch
https://conda.anaconda.org/tiledb/linux-64
https://conda.anaconda.org/tiledb/noarch
package cache : /home/conda/feedstock_root/build_artifacts/pkg_cache
/opt/conda/pkgs
envs directories : /opt/conda/envs
/home/conda/.conda/envs
platform : linux-64
user-agent : conda/24.9.2 requests/2.32.3 CPython/3.12.7 Linux/6.8.0-1019-aws centos/7.9.2009 glibc/2.17 solver/libmamba conda-libmamba-solver/24.9.0 libmambapy/1.5.10
UID:GID : 1000:1000
netrc file : None
offline mode : False
++ conda config --env --show-sources
==> /opt/conda/.condarc <==
add_pip_as_python_dependency: False
auto_update_conda: False
aggressive_update_packages:
- ca-certificates
- certifi
channel_priority: strict
channels:
- conda-forge
- tiledb
show_channel_urls: True
conda_build:
pkg_format: 2
zstd_compression_level: 19
==> /home/conda/.condarc <==
pkgs_dirs:
- /home/conda/feedstock_root/build_artifacts/pkg_cache
- /opt/conda/pkgs
solver: libmamba
conda-build:
root-dir: /home/conda/feedstock_root/build_artifacts
==> envvars <==
allow_softlinks: False
bld_path: /home/conda/feedstock_root/build_artifacts
++ conda list --show-channel-urls
# packages in environment at /opt/conda:
#
# Name Version Build Channel
_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 2_gnu conda-forge
anaconda-client 1.12.3 pyhd8ed1ab_1 conda-forge
archspec 0.2.3 pyhd8ed1ab_0 conda-forge
attrs 24.2.0 pyh71513ae_0 conda-forge
beautifulsoup4 4.12.3 pyha770c72_0 conda-forge
boltons 24.0.0 pyhd8ed1ab_0 conda-forge
brotli-python 1.1.0 py312h2ec8cdc_2 conda-forge
bzip2 1.0.8 h4bc722e_7 conda-forge
c-ares 1.32.3 h4bc722e_0 conda-forge
ca-certificates 2024.8.30 hbcca054_0 conda-forge
certifi 2024.8.30 pyhd8ed1ab_0 conda-forge
cffi 1.17.1 py312h06ac9bb_0 conda-forge
chardet 5.2.0 py312h7900ff3_2 conda-forge
charset-normalizer 3.4.0 pyhd8ed1ab_0 conda-forge
click 8.1.7 unix_pyh707e725_0 conda-forge
colorama 0.4.6 pyhd8ed1ab_0 conda-forge
conda 24.9.2 py312h7900ff3_0 conda-forge
conda-build 24.9.0 py312h7900ff3_0 conda-forge
conda-env 2.6.0 1 conda-forge
conda-forge-ci-setup 4.12.2 py312hb3d6910_100 conda-forge
conda-forge-metadata 0.11.0 pyhd8ed1ab_0 conda-forge
conda-index 0.5.0 pyhd8ed1ab_0 conda-forge
conda-libmamba-solver 24.9.0 pyhd8ed1ab_0 conda-forge
conda-oci-mirror 0.2.1 pyhd8ed1ab_0 conda-forge
conda-package-handling 2.4.0 pyh7900ff3_0 conda-forge
conda-package-streaming 0.11.0 pyhd8ed1ab_0 conda-forge
defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge
deprecated 1.2.15 pyhff2d567_0 conda-forge
distro 1.9.0 pyhd8ed1ab_0 conda-forge
filelock 3.16.1 pyhd8ed1ab_0 conda-forge
fmt 11.0.2 h434a139_0 conda-forge
frozendict 2.4.6 py312h66e93f0_0 conda-forge
git 2.47.0 pl5321h59d505e_0 conda-forge
h2 4.1.0 pyhd8ed1ab_0 conda-forge
hpack 4.0.0 pyh9f0ad1d_0 conda-forge
hyperframe 6.0.1 pyhd8ed1ab_0 conda-forge
icu 75.1 he02047a_0 conda-forge
idna 3.10 pyhd8ed1ab_0 conda-forge
importlib_resources 6.4.5 pyhd8ed1ab_0 conda-forge
jinja2 3.1.4 pyhd8ed1ab_0 conda-forge
joblib 1.4.2 pyhd8ed1ab_0 conda-forge
jq 1.7.1 hd590300_0 conda-forge
jsonpatch 1.33 pyhd8ed1ab_0 conda-forge
jsonpointer 3.0.0 py312h7900ff3_1 conda-forge
jsonschema 4.23.0 pyhd8ed1ab_0 conda-forge
jsonschema-specifications 2024.10.1 pyhd8ed1ab_0 conda-forge
jupyter_core 5.7.2 pyh31011fe_1 conda-forge
keyutils 1.6.1 h166bdaf_0 conda-forge
krb5 1.21.3 h659f571_0 conda-forge
ld_impl_linux-64 2.43 h712a8e2_2 conda-forge
libarchive 3.7.4 hfca40fe_0 conda-forge
libcurl 8.10.1 hbbe4b11_0 conda-forge
libedit 3.1.20191231 he28a2e2_2 conda-forge
libev 4.33 hd590300_2 conda-forge
libexpat 2.6.4 h5888daf_0 conda-forge
libffi 3.4.2 h7f98852_5 conda-forge
libgcc 14.2.0 h77fa898_1 conda-forge
libgcc-ng 14.2.0 h69a702a_1 conda-forge
libgomp 14.2.0 h77fa898_1 conda-forge
libiconv 1.17 hd590300_2 conda-forge
liblief 0.14.1 h5888daf_2 conda-forge
libmamba 1.5.10 hf72d635_1 conda-forge
libmambapy 1.5.10 py312hf3f0a4e_1 conda-forge
libnghttp2 1.64.0 h161d5f1_0 conda-forge
libnsl 2.0.1 hd590300_0 conda-forge
libsolv 0.7.30 h3509ff9_0 conda-forge
libsqlite 3.47.0 hadc24fc_1 conda-forge
libssh2 1.11.0 h0841786_0 conda-forge
libstdcxx 14.2.0 hc0a3c3a_1 conda-forge
libstdcxx-ng 14.2.0 h4852527_1 conda-forge
libuuid 2.38.1 h0b41bf4_0 conda-forge
libxcrypt 4.4.36 hd590300_1 conda-forge
libxml2 2.13.5 hb346dea_0 conda-forge
libzlib 1.3.1 hb9d3cd8_2 conda-forge
lz4-c 1.9.4 hcb278e6_0 conda-forge
lzo 2.10 hd590300_1001 conda-forge
mamba 1.5.10 py312h9460a1c_1 conda-forge
markupsafe 3.0.2 py312h178313f_0 conda-forge
menuinst 2.2.0 py312h7900ff3_0 conda-forge
more-itertools 10.5.0 pyhd8ed1ab_0 conda-forge
nbformat 5.10.4 pyhd8ed1ab_0 conda-forge
ncurses 6.5 he02047a_1 conda-forge
oniguruma 6.9.9 hd590300_0 conda-forge
openssl 3.4.0 hb9d3cd8_0 conda-forge
oras-py 0.1.14 pyhd8ed1ab_0 conda-forge
packaging 24.2 pyhff2d567_1 conda-forge
patch 2.7.6 h7f98852_1002 conda-forge
patchelf 0.17.2 h58526e2_0 conda-forge
pcre2 10.44 hba22ea6_2 conda-forge
perl 5.32.1 7_hd590300_perl5 conda-forge
pip 24.3.1 pyh8b19718_0 conda-forge
pkginfo 1.11.2 pyhd8ed1ab_0 conda-forge
pkgutil-resolve-name 1.3.10 pyhd8ed1ab_1 conda-forge
platformdirs 4.3.6 pyhd8ed1ab_0 conda-forge
pluggy 1.5.0 pyhd8ed1ab_0 conda-forge
psutil 6.1.0 py312h66e93f0_0 conda-forge
py-lief 0.14.1 py312h2ec8cdc_2 conda-forge
pybind11-abi 4 hd8ed1ab_3 conda-forge
pycosat 0.6.6 py312h98912ed_0 conda-forge
pycparser 2.22 pyhd8ed1ab_0 conda-forge
pysocks 1.7.1 pyha2e5f31_6 conda-forge
python 3.12.7 hc5c86c4_0_cpython conda-forge
python-dateutil 2.9.0 pyhd8ed1ab_0 conda-forge
python-fastjsonschema 2.20.0 pyhd8ed1ab_0 conda-forge
python-libarchive-c 5.1 py312h7900ff3_1 conda-forge
python_abi 3.12 5_cp312 conda-forge
pytz 2024.2 pyhd8ed1ab_0 conda-forge
pyyaml 6.0.2 py312h66e93f0_1 conda-forge
rattler-build 0.31.1 h51b9b6e_0 conda-forge
rattler-build-conda-compat 1.2.2 pyhd8ed1ab_0 conda-forge
readline 8.2 h8228510_1 conda-forge
referencing 0.35.1 pyhd8ed1ab_0 conda-forge
reproc 14.2.4.post0 hd590300_1 conda-forge
reproc-cpp 14.2.4.post0 h59595ed_1 conda-forge
requests 2.32.3 pyhd8ed1ab_0 conda-forge
requests-toolbelt 1.0.0 pyhd8ed1ab_0 conda-forge
ripgrep 14.1.1 h8fae777_0 conda-forge
rpds-py 0.21.0 py312h12e396e_0 conda-forge
ruamel.yaml 0.18.6 py312h66e93f0_1 conda-forge
ruamel.yaml.clib 0.2.8 py312h66e93f0_1 conda-forge
ruamel_yaml 0.15.80 py312h98912ed_1009 conda-forge
setuptools 75.5.0 pyhff2d567_0 conda-forge
shyaml 0.6.2 pyhd3deb0d_0 conda-forge
six 1.16.0 pyh6c4a22f_0 conda-forge
soupsieve 2.5 pyhd8ed1ab_1 conda-forge
su-exec 0.2 h166bdaf_1003 conda-forge
tini 0.19.0 h166bdaf_1 conda-forge
tk 8.6.13 noxft_h4845f30_101 conda-forge
tomli 2.1.0 pyhff2d567_0 conda-forge
tqdm 4.67.0 pyhd8ed1ab_0 conda-forge
traitlets 5.14.3 pyhd8ed1ab_0 conda-forge
truststore 0.10.0 pyhd8ed1ab_0 conda-forge
typing-extensions 4.12.2 hd8ed1ab_0 conda-forge
typing_extensions 4.12.2 pyha770c72_0 conda-forge
tzdata 2024b hc8b5060_0 conda-forge
urllib3 2.2.3 pyhd8ed1ab_0 conda-forge
wheel 0.45.0 pyhd8ed1ab_0 conda-forge
wrapt 1.16.0 py312h66e93f0_1 conda-forge
xz 5.2.6 h166bdaf_0 conda-forge
yaml 0.2.5 h7f98852_2 conda-forge
yaml-cpp 0.8.0 h59595ed_0 conda-forge
zipp 3.21.0 pyhd8ed1ab_0 conda-forge
zstandard 0.23.0 py312hef9b889_1 conda-forge
zstd 1.5.6 ha6fb4c9_0 conda-forge
+ make_build_number /home/conda/feedstock_root /home/conda/recipe_root /home/conda/feedstock_root/.ci_support/linux_64_.yaml
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 58, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 62, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 66, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 70, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 74, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 78, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 82, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 86, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 90, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 94, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 98, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 102, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 106, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 110, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 114, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
/opt/conda/lib/python3.12/site-packages/ruamel_yaml/constructor.py:277: DuplicateKeyFutureWarning: while constructing a mapping
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 1, column 1
found duplicate key "CI" with value "[]" (original value: "[]")
in "/home/conda/feedstock_root/.ci_support/linux_64_.yaml", line 118, column 1
To suppress this check see:
http://yaml.readthedocs.io/en/latest/api.html#duplicate-keys
Duplicate keys will become an error in future releases, and are errors
by default when using the new API.
warnings.warn(DuplicateKeyFutureWarning(*args))
+ [[ linux-64 != \l\i\n\u\x\-\6\4 ]]
+ [[ -f /home/conda/feedstock_root/LICENSE.txt ]]
+ cp /home/conda/feedstock_root/LICENSE.txt /home/conda/recipe_root/recipe-scripts-license.txt
+ [[ 0 == 1 ]]
+ conda-build /home/conda/recipe_root -m /home/conda/feedstock_root/.ci_support/linux_64_.yaml --suppress-variables --clobber-file /home/conda/feedstock_root/.ci_support/clobber_linux_64_.yaml --extra-meta flow_run_id= remote_url= sha=
WARNING: No numpy version specified in conda_build_config.yaml. Falling back to default numpy value of 1.26
Adding in variants from internal_defaults
Adding in variants from /home/conda/recipe_root/conda_build_config.yaml
Adding in variants from /home/conda/feedstock_root/.ci_support/linux_64_.yaml
Attempting to finalize metadata for libtiledbsoma
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Attempting to finalize metadata for r-tiledbsoma
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Attempting to finalize metadata for tiledbsoma-py
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Getting pinned dependencies: ...working... done
BUILD START: ['libtiledbsoma-1.15.0rc3-hc73c20e_1.conda', 'r-tiledbsoma-1.15.0rc3-r43hd2a4b20_1.conda', 'tiledbsoma-py-1.15.0rc3-py310h62854ca_1.conda', 'tiledbsoma-py-1.15.0rc3-py311ha3003c6_1.conda', 'tiledbsoma-py-1.15.0rc3-py312hc84bcbe_1.conda', 'tiledbsoma-py-1.15.0rc3-py39he149153_1.conda']
git: 'lfs' is not a git command. See 'git --help'.
The most similar command is
refs
Cloning into '/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/work'...
done.
Updating files: 100% (659/659), done.
checkout: 'main'
Already on 'main'
Your branch is up to date with 'origin/main'.
==> /opt/conda/bin/git log -n1 <==
commit ecaca2b4d816c54b14d7d14b174647645e7db019
Author: Julia Dark <24235303+jp-dark@users.noreply.github.com>
Date: Fri Nov 22 16:09:57 2024 -0500
Fix typos and import order in the spatial outgest (#3381)
==> /opt/conda/bin/git describe --tags --dirty <==
internal-checkpoint-for-pre-1.15.0rc4-83-gecaca2b4d
==> /opt/conda/bin/git status <==
On branch main
Your branch is up to date with 'origin/main'.
nothing to commit, working tree clean
Rendered as:
```yaml
package:
name: libtiledbsoma
version: 1.15.0rc3
source:
git_depth: '-1'
git_rev: main
git_url: https://github.com/single-cell-data/TileDB-SOMA.git
build:
noarch: false
noarch_python: false
number: '1'
script: build-libtiledbsoma.sh
requirements:
build:
- libstdcxx 14.2.0 hc0a3c3a_1
- gxx_linux-64 13.3.0 h6834431_7
- gxx_impl_linux-64 13.3.0 hdbfa832_1
- ld_impl_linux-64 2.43 h712a8e2_2
- libgcc 14.2.0 h77fa898_1
- libev 4.33 hd590300_2
- keyutils 1.6.1 h166bdaf_0
- libgcc-ng 14.2.0 h69a702a_1
- libxcrypt 4.4.36 hd590300_1
- cmake 3.31.1 hf9cb763_0
- libiconv 1.17 hd590300_2
- rhash 1.4.5 hb9d3cd8_0
- perl 5.32.1 7_hd590300_perl5
- zstd 1.5.6 ha6fb4c9_0
- libgomp 14.2.0 h77fa898_1
- libedit 3.1.20191231 he28a2e2_2
- binutils_impl_linux-64 2.43 h4bf12b8_2
- xz 5.2.6 h166bdaf_0
- git 2.47.0 pl5321h59d505e_0
- libstdcxx-devel_linux-64 13.3.0 h84ea5a7_101
- bzip2 1.0.8 h4bc722e_7
- _openmp_mutex 4.5 2_gnu
- libuv 1.49.2 hb9d3cd8_0
- gcc_impl_linux-64 13.3.0 hfea6d02_1
- gcc_linux-64 13.3.0 hc28eda2_7
- libsanitizer 13.3.0 heb74ff8_1
- make 4.4.1 hb9d3cd8_2
- pcre2 10.44 hba22ea6_2
- sysroot_linux-64 2.17 h4a8ded7_18
- libcurl 8.10.1 hbbe4b11_0
- kernel-headers_linux-64 3.10.0 he073ed8_18
- _libgcc_mutex 0.1 conda_forge
- libgcc-devel_linux-64 13.3.0 h84ea5a7_101
- libzlib 1.3.1 hb9d3cd8_2
- libstdcxx-ng 14.2.0 h4852527_1
- ncurses 6.5 he02047a_1
- tzdata 2024b hc8b5060_0
- libssh2 1.11.1 hf672d98_0
- ca-certificates 2024.8.30 hbcca054_0
- krb5 1.21.3 h659f571_0
- c-ares 1.34.3 hb9d3cd8_1
- libnghttp2 1.64.0 h161d5f1_0
- libexpat 2.6.4 h5888daf_0
- openssl 3.4.0 hb9d3cd8_0
- binutils_linux-64 2.43 h4852527_2
host:
- _libgcc_mutex 0.1 conda_forge
- ca-certificates 2024.8.30 hbcca054_0
- libgomp 14.2.0 h77fa898_1
- _openmp_mutex 4.5 2_gnu
- libgcc 14.2.0 h77fa898_1
- aws-c-common 0.10.3 hb9d3cd8_0
- c-ares 1.34.3 hb9d3cd8_1
- libgcc-ng 14.2.0 h69a702a_1
- libstdcxx 14.2.0 hc0a3c3a_1
- libzlib 1.3.1 hb9d3cd8_2
- openssl 3.4.0 hb9d3cd8_0
- aws-c-cal 0.8.0 hecf86a2_2
- aws-c-compression 0.3.0 hf42f96a_2
- aws-c-sdkutils 0.2.1 hf42f96a_1
- aws-checksums 0.2.2 hf42f96a_1
- bzip2 1.0.8 h4bc722e_7
- capnproto 1.0.2 h766bdaa_3
- keyutils 1.6.1 h166bdaf_0
- libabseil 20240722.0 cxx17_h5888daf_1
- libev 4.33 hd590300_2
- libiconv 1.17 hd590300_2
- libssh2 1.11.1 hf672d98_0
- libstdcxx-ng 14.2.0 h4852527_1
- libwebp-base 1.4.0 hd590300_0
- ncurses 6.5 he02047a_1
- s2n 1.5.9 h0fd0ee4_0
- xz 5.2.6 h166bdaf_0
- aws-c-io 0.15.2 hdeadb07_2
- fmt 11.0.2 h434a139_0
- libcrc32c 1.1.2 h9c3ff4c_0
- libedit 3.1.20191231 he28a2e2_2
- libnghttp2 1.64.0 h161d5f1_0
- libprotobuf 5.28.2 h5b01275_0
- libre2-11 2024.07.02 hbbce691_1
- libxml2 2.13.5 h064dc61_0
- lz4-c 1.9.4 hcb278e6_0
- zstd 1.5.6 ha6fb4c9_0
- aws-c-event-stream 0.5.0 h1ffe551_7
- aws-c-http 0.9.1 hab05fe4_2
- krb5 1.21.3 h659f571_0
- re2 2024.07.02 h77b4e00_1
- spdlog 1.14.1 hed91bc2_1
- aws-c-auth 0.8.0 hb88c0a9_10
- aws-c-mqtt 0.11.0 h7bd072d_8
- libcurl 8.10.1 hbbe4b11_0
- libgrpc 1.67.1 hc2c308b_0
- aws-c-s3 0.7.1 h3a84f74_3
- azure-core-cpp 1.14.0 h5cfcd09_0
- libgoogle-cloud 2.31.0 h804f50b_0
- aws-crt-cpp 0.29.5 h21d7256_0
- azure-identity-cpp 1.10.0 h113e628_0
- azure-storage-common-cpp 12.8.0 h736e048_1
- libgoogle-cloud-storage 2.31.0 h0121fbd_0
- aws-sdk-cpp 1.11.449 hdaa582e_3
- azure-storage-blobs-cpp 12.13.0 h3cf044e_1
- tiledb 2.26.2 h33a2f6d_11
run:
- libstdcxx >=13
- tiledb >=2.26.2,<2.27.0a0
- libgcc >=13
- fmt >=11.0.2,<12.0a0
- spdlog >=1.14.1,<1.15.0a0
- __glibc >=2.17,<3.0.a0
outputs:
- about:
description: SOMA - for "Stack Of Matrices, Annotated" - is a flexible, extensible,
and open-source API enabling access to data in a variety of formats. The driving
use case of SOMA is for single-cell data in the form of annotated matrices
where observations are frequently cells and features are genes, proteins,
or genomic regions.
dev_url: https://github.com/single-cell-data/TileDB-SOMA
doc_url: https://docs.tiledb.com/
home: http://tiledb.com
license: MIT
license_family: MIT
license_file: LICENSE
summary: TileDB-SOMA C++ library
name: libtiledbsoma
requirements:
build:
- gcc_linux-64 13.*
- gxx_linux-64 13.*
- sysroot_linux-64 2.17.*
- git
- cmake
- make
host:
- tiledb >=2.26.0,<2.27
- spdlog
- fmt
script: build-libtiledbsoma.sh
version: 1.15.0rc3
- about:
description: Python API for efficient storage and retrieval of single-cell data
using TileDB
dev_url: https://github.com/single-cell-data/TileDB-SOMA/tree/main/apis/python
doc_url: https://docs.tiledb.com/
home: http://tiledb.com
license: MIT
license_family: MIT
license_file: LICENSE
summary: TileDB-SOMA Python API
name: tiledbsoma-py
requirements:
build:
- gxx_linux-64 13.*
- sysroot_linux-64 2.17.*
host:
- python
- pip
- libtiledbsoma 1.15.0rc3 1
- pybind11
- setuptools
- setuptools_scm
- wheel
- numpy
- pyarrow
run:
- libtiledbsoma 1.15.0rc3 1
- pandas
- pyarrow
- python
- scipy
- anndata >=0.10.1
- tiledb-py >=0.32.0,<0.33.0
- typing-extensions >=4.1
- numba >=0.58.1
- attrs >=22.2
- somacore ==1.0.24
- scanpy >=1.9.2
script: build-tiledbsoma-py.sh
test:
commands:
- python -c 'import tiledbsoma; print(tiledbsoma.pytiledbsoma.version())'
- python -c 'import tiledbsoma; assert not tiledbsoma.DataFrame.exists("s3://abc/def")'
- pip check
imports:
- tiledbsoma
requires:
- pip
- tiledb >=2.26.2,<2.27
version: 1.15.0rc3
- about:
description: R API for efficient storage and retrieval of single-cell data using
TileDB
dev_url: https://github.com/single-cell-data/TileDB-SOMA/tree/main/apis/r
doc_url: https://docs.tiledb.com/
home: http://tiledb.com
license: MIT
license_family: MIT
license_file:
-$PREFIX/lib/R/share/licenses/MIT
- apis/r/LICENSE
summary: TileDB-SOMA R API
build:
rpaths:
- lib/R/lib/
- lib/
name: r-tiledbsoma
requirements:
build:
- gxx_linux-64 13.*
- sysroot_linux-64 2.17.*
- pkg-config
host:
- libtiledbsoma 1.15.0rc3 1
- r-base
- r-r6
- r-matrix
- r-bit64
- r-rcppint64
- r-tiledb >=0.30.0,<0.31
- r-arrow
- r-fs
- r-glue
- r-urltools
- r-rcpp
- r-dplyr
- r-data.table
- r-spdl
- r-rlang
- r-nanoarrow
run:
- libtiledbsoma 1.15.0rc3 1
- r-base
- r-r6
- r-matrix
- r-bit64
- r-tiledb >=0.30.0,<0.31
- r-arrow
- r-fs
- r-glue
- r-urltools
- r-rcpp
- r-dplyr
- r-data.table
- r-spdl
- r-rlang
- r-nanoarrow
script: build-r-tiledbsoma.sh
test:
commands:
- $R -e "library('tiledbsoma')"
- $R -e "tiledbsoma::show_package_versions()"
- ldd $PREFIX/lib/R/library/tiledbsoma/libs/tiledbsoma.so | grep -e libR -e
libtiledb
requires:
- tiledb >=2.26.2,<2.27
version: 1.15.0rc3
about:
description: SOMA - for "Stack Of Matrices, Annotated" - is a flexible, extensible,
and open-source API enabling access to data in a variety of formats. The driving
use case of SOMA is for single-cell data in the form of annotated matrices where
observations are frequently cells and features are genes, proteins, or genomic
regions.
dev_url: https://github.com/single-cell-data/TileDB-SOMA
doc_url: https://docs.tiledb.com/
home: http://tiledb.com
license: MIT
license_family: MIT
license_file: LICENSE
summary: TileDB-SOMA C++ library
extra:
copy_test_source_files: true
final: true
parent_recipe:
name: tiledbsoma
path: /home/conda/recipe_root
version: 1.15.0rc3
recipe-maintainers:
- johnkerl
- gspowley
- shelnutt2
- mlin
- jdblischak
```
source tree in: /home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/work
Packaging libtiledbsoma
Reloading output folder (local): ...working... done
Solving environment (_h_env): ...working... done
## Package Plan ##
environment location:$PREFIX
The following NEW packages will be INSTALLED:
_libgcc_mutex: 0.1-conda_forge conda-forge
_openmp_mutex: 4.5-2_gnu conda-forge
aws-c-auth: 0.8.0-hb88c0a9_10 conda-forge
aws-c-cal: 0.8.0-hecf86a2_2 conda-forge
aws-c-common: 0.10.3-hb9d3cd8_0 conda-forge
aws-c-compression: 0.3.0-hf42f96a_2 conda-forge
aws-c-event-stream: 0.5.0-h1ffe551_7 conda-forge
aws-c-http: 0.9.1-hab05fe4_2 conda-forge
aws-c-io: 0.15.2-hdeadb07_2 conda-forge
aws-c-mqtt: 0.11.0-h7bd072d_8 conda-forge
aws-c-s3: 0.7.1-h3a84f74_3 conda-forge
aws-c-sdkutils: 0.2.1-hf42f96a_1 conda-forge
aws-checksums: 0.2.2-hf42f96a_1 conda-forge
aws-crt-cpp: 0.29.5-h21d7256_0 conda-forge
aws-sdk-cpp: 1.11.449-hdaa582e_3 conda-forge
azure-core-cpp: 1.14.0-h5cfcd09_0 conda-forge
azure-identity-cpp: 1.10.0-h113e628_0 conda-forge
azure-storage-blobs-cpp: 12.13.0-h3cf044e_1 conda-forge
azure-storage-common-cpp: 12.8.0-h736e048_1 conda-forge
bzip2: 1.0.8-h4bc722e_7 conda-forge
c-ares: 1.34.3-hb9d3cd8_1 conda-forge
ca-certificates: 2024.8.30-hbcca054_0 conda-forge
capnproto: 1.0.2-h766bdaa_3 conda-forge
fmt: 11.0.2-h434a139_0 conda-forge
keyutils: 1.6.1-h166bdaf_0 conda-forge
krb5: 1.21.3-h659f571_0 conda-forge
libabseil: 20240722.0-cxx17_h5888daf_1 conda-forge
libcrc32c: 1.1.2-h9c3ff4c_0 conda-forge
libcurl: 8.10.1-hbbe4b11_0 conda-forge
libedit: 3.1.20191231-he28a2e2_2 conda-forge
libev: 4.33-hd590300_2 conda-forge
libgcc: 14.2.0-h77fa898_1 conda-forge
libgcc-ng: 14.2.0-h69a702a_1 conda-forge
libgomp: 14.2.0-h77fa898_1 conda-forge
libgoogle-cloud: 2.31.0-h804f50b_0 conda-forge
libgoogle-cloud-storage: 2.31.0-h0121fbd_0 conda-forge
libgrpc: 1.67.1-hc2c308b_0 conda-forge
libiconv: 1.17-hd590300_2 conda-forge
libnghttp2: 1.64.0-h161d5f1_0 conda-forge
libprotobuf: 5.28.2-h5b01275_0 conda-forge
libre2-11: 2024.07.02-hbbce691_1 conda-forge
libssh2: 1.11.1-hf672d98_0 conda-forge
libstdcxx: 14.2.0-hc0a3c3a_1 conda-forge
libstdcxx-ng: 14.2.0-h4852527_1 conda-forge
libwebp-base: 1.4.0-hd590300_0 conda-forge
libxml2: 2.13.5-h064dc61_0 conda-forge
libzlib: 1.3.1-hb9d3cd8_2 conda-forge
lz4-c: 1.9.4-hcb278e6_0 conda-forge
ncurses: 6.5-he02047a_1 conda-forge
openssl: 3.4.0-hb9d3cd8_0 conda-forge
re2: 2024.07.02-h77b4e00_1 conda-forge
s2n: 1.5.9-h0fd0ee4_0 conda-forge
spdlog: 1.14.1-hed91bc2_1 conda-forge
tiledb: 2.26.2-h33a2f6d_11 conda-forge
xz: 5.2.6-h166bdaf_0 conda-forge
zstd: 1.5.6-ha6fb4c9_0 conda-forge
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Reloading output folder (local): ...working... done
Solving environment (_build_env): ...working... done
## Package Plan ##
environment location: /home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env
The following NEW packages will be INSTALLED:
_libgcc_mutex: 0.1-conda_forge conda-forge
_openmp_mutex: 4.5-2_gnu conda-forge
binutils_impl_linux-64: 2.43-h4bf12b8_2 conda-forge
binutils_linux-64: 2.43-h4852527_2 conda-forge
bzip2: 1.0.8-h4bc722e_7 conda-forge
c-ares: 1.34.3-hb9d3cd8_1 conda-forge
ca-certificates: 2024.8.30-hbcca054_0 conda-forge
cmake: 3.31.1-hf9cb763_0 conda-forge
gcc_impl_linux-64: 13.3.0-hfea6d02_1 conda-forge
gcc_linux-64: 13.3.0-hc28eda2_7 conda-forge
git: 2.47.0-pl5321h59d505e_0 conda-forge
gxx_impl_linux-64: 13.3.0-hdbfa832_1 conda-forge
gxx_linux-64: 13.3.0-h6834431_7 conda-forge
kernel-headers_linux-64: 3.10.0-he073ed8_18 conda-forge
keyutils: 1.6.1-h166bdaf_0 conda-forge
krb5: 1.21.3-h659f571_0 conda-forge
ld_impl_linux-64: 2.43-h712a8e2_2 conda-forge
libcurl: 8.10.1-hbbe4b11_0 conda-forge
libedit: 3.1.20191231-he28a2e2_2 conda-forge
libev: 4.33-hd590300_2 conda-forge
libexpat: 2.6.4-h5888daf_0 conda-forge
libgcc: 14.2.0-h77fa898_1 conda-forge
libgcc-devel_linux-64: 13.3.0-h84ea5a7_101 conda-forge
libgcc-ng: 14.2.0-h69a702a_1 conda-forge
libgomp: 14.2.0-h77fa898_1 conda-forge
libiconv: 1.17-hd590300_2 conda-forge
libnghttp2: 1.64.0-h161d5f1_0 conda-forge
libsanitizer: 13.3.0-heb74ff8_1 conda-forge
libssh2: 1.11.1-hf672d98_0 conda-forge
libstdcxx: 14.2.0-hc0a3c3a_1 conda-forge
libstdcxx-devel_linux-64: 13.3.0-h84ea5a7_101 conda-forge
libstdcxx-ng: 14.2.0-h4852527_1 conda-forge
libuv: 1.49.2-hb9d3cd8_0 conda-forge
libxcrypt: 4.4.36-hd590300_1 conda-forge
libzlib: 1.3.1-hb9d3cd8_2 conda-forge
make: 4.4.1-hb9d3cd8_2 conda-forge
ncurses: 6.5-he02047a_1 conda-forge
openssl: 3.4.0-hb9d3cd8_0 conda-forge
pcre2: 10.44-hba22ea6_2 conda-forge
perl: 5.32.1-7_hd590300_perl5 conda-forge
rhash: 1.4.5-hb9d3cd8_0 conda-forge
sysroot_linux-64: 2.17-h4a8ded7_18 conda-forge
tzdata: 2024b-hc8b5060_0 conda-forge
xz: 5.2.6-h166bdaf_0 conda-forge
zstd: 1.5.6-ha6fb4c9_0 conda-forge
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Packaging libtiledbsoma-1.15.0rc3-hc73c20e_1
INFO: activate-binutils_linux-64.sh made the following environmental changes:
+ADDR2LINE=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-addr2line
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+STRIP=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-strip
INFO: activate-gcc_linux-64.sh made the following environmental changes:
+build_alias=x86_64-conda-linux-gnu
-BUILD=x86_64-conda_cos6-linux-gnu
+BUILD=x86_64-conda-linux-gnu
+CC_FOR_BUILD=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-cc
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+CMAKE_PREFIX_PATH=$PREFIX:/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/x86_64-conda-linux-gnu/sysroot/usr
+CONDA_BUILD_SYSROOT=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/x86_64-conda-linux-gnu/sysroot
+_CONDA_PYTHON_SYSCONFIGDATA_NAME=_sysconfigdata_x86_64_conda_cos6_linux_gnu
+CONDA_TOOLCHAIN_BUILD=x86_64-conda-linux-gnu
+CONDA_TOOLCHAIN_HOST=x86_64-conda-linux-gnu
+CPPFLAGS=-DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem$PREFIX/include
+CPP=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-cpp
+DEBUG_CFLAGS=-march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-all -fno-plt -Og -g -Wall -Wextra -fvar-tracking-assignments -ffunction-sections -pipe -isystem$PREFIX/include -fdebug-prefix-map=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/work=/usr/local/src/conda/libtiledbsoma-1.15.0rc3 -fdebug-prefix-map=$PREFIX=/usr/local/src/conda-prefix
+DEBUG_CPPFLAGS=-D_DEBUG -D_FORTIFY_SOURCE=2 -Og -isystem$PREFIX/include
+GCC_AR=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-gcc-ar
+GCC=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-gcc
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+host_alias=x86_64-conda-linux-gnu
+HOST=x86_64-conda-linux-gnu
+LDFLAGS=-Wl,-O2 -Wl,--sort-common -Wl,--as-needed -Wl,-z,relro -Wl,-z,now -Wl,--disable-new-dtags -Wl,--gc-sections -Wl,--allow-shlib-undefined -Wl,-rpath,$PREFIX/lib -Wl,-rpath-link,$PREFIX/lib -L$PREFIX/lib
+MESON_ARGS=-Dbuildtype=release --prefix=$PREFIX -Dlibdir=lib
INFO: activate-gxx_linux-64.sh made the following environmental changes:
+CXXFLAGS=-fvisibility-inlines-hidden -fmessage-length=0 -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem$PREFIX/include -fdebug-prefix-map=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/work=/usr/local/src/conda/libtiledbsoma-1.15.0rc3 -fdebug-prefix-map=$PREFIX=/usr/local/src/conda-prefix
+CXX_FOR_BUILD=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++
+CXX=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++
+DEBUG_CXXFLAGS=-fvisibility-inlines-hidden -fmessage-length=0 -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-all -fno-plt -Og -g -Wall -Wextra -fvar-tracking-assignments -ffunction-sections -pipe -isystem$PREFIX/include -fdebug-prefix-map=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/work=/usr/local/src/conda/libtiledbsoma-1.15.0rc3 -fdebug-prefix-map=$PREFIX=/usr/local/src/conda-prefix
+GXX=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-g++
+ mkdir libtiledbsoma-build
+ cd libtiledbsoma-build
+ cmake -DCMAKE_INSTALL_PREFIX:PATH=$PREFIX -DOVERRIDE_INSTALL_PREFIX=OFF -DCMAKE_BUILD_TYPE=Release -DTILEDBSOMA_BUILD_CLI=OFF -DTILEDBSOMA_ENABLE_TESTING=OFF ../libtiledbsoma
-- Install prefix is$PREFIX.
-- The C compiler identification is GNU 13.3.0
-- The CXX compiler identification is GNU 13.3.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Starting TileDB-SOMA superbuild.
-- Found TileDB:$PREFIX/lib/libtiledb.so.2.26
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE
-- Not found clang-tidy
-- Not found clang-format
-- Configuring done (0.8s)
-- Generating done (0.0s)
-- Build files have been written to: /home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/work/libtiledbsoma-build
+ make -j 2
[ 12%] Creating directories for 'libtiledbsoma'
[ 25%] No download step for 'libtiledbsoma'
[ 37%] No update step for 'libtiledbsoma'
[ 50%] No patch step for 'libtiledbsoma'
[ 62%] Performing configure step for 'libtiledbsoma'
-- Install prefix is$PREFIX.
-- The C compiler identification is GNU 13.3.0
-- The CXX compiler identification is GNU 13.3.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Starting TileDB-SOMA regular build.
-- Performing Test HAVE_AVX2
-- Performing Test HAVE_AVX2 - Success
-- Found TileDB:$PREFIX/lib/libtiledb.so.2.26
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE
-- Starting TileDB-SOMA build.
-- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY
-- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY - Success
-- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY
-- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY - Success
-- Performing Test COMPILER_HAS_DEPRECATED_ATTR
-- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success
-- Configuring done (1.9s)
-- Generating done (0.0s)
-- Build files have been written to: /home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/work/libtiledbsoma-build/libtiledbsoma
[ 75%] Performing build step for 'libtiledbsoma'
[ 2%] Building CXX object src/CMakeFiles/TILEDBSOMA_NANOARROW_OBJECT.dir/external/src/nanoarrow/nanoarrow.c.o
[ 5%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/reindexer/reindexer.cc.o
[ 5%] Built target TILEDBSOMA_NANOARROW_OBJECT
[ 8%] Building CXX object src/CMakeFiles/TILEDB_SOMA_GEOMETRY_OBJECTS.dir/geometry/point.cc.o
[ 11%] Building CXX object src/CMakeFiles/TILEDB_SOMA_GEOMETRY_OBJECTS.dir/geometry/linestring.cc.o
[ 13%] Building CXX object src/CMakeFiles/TILEDB_SOMA_GEOMETRY_OBJECTS.dir/geometry/polygon.cc.o
[ 16%] Building CXX object src/CMakeFiles/TILEDB_SOMA_GEOMETRY_OBJECTS.dir/geometry/multipoint.cc.o
[ 19%] Building CXX object src/CMakeFiles/TILEDB_SOMA_GEOMETRY_OBJECTS.dir/geometry/multilinestring.cc.o
[ 22%] Building CXX object src/CMakeFiles/TILEDB_SOMA_GEOMETRY_OBJECTS.dir/geometry/multipolygon.cc.o
[ 25%] Building CXX object src/CMakeFiles/TILEDB_SOMA_GEOMETRY_OBJECTS.dir/geometry/operators/io/read.cc.o
[ 27%] Building CXX object src/CMakeFiles/TILEDB_SOMA_GEOMETRY_OBJECTS.dir/geometry/operators/io/write.cc.o
[ 30%] Building CXX object src/CMakeFiles/TILEDB_SOMA_GEOMETRY_OBJECTS.dir/geometry/operators/envelope.cc.o
[ 30%] Built target TILEDB_SOMA_GEOMETRY_OBJECTS
[ 33%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/managed_query.cc.o
[ 36%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_array.cc.o
[ 38%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_group.cc.o
[ 41%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_object.cc.o
[ 44%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_collection.cc.o
[ 47%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_experiment.cc.o
[ 50%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_measurement.cc.o
[ 52%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_scene.cc.o
[ 55%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_geometry_dataframe.cc.o
[ 58%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_point_cloud_dataframe.cc.o
[ 61%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_multiscale_image.cc.o
[ 63%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_context.cc.o
[ 66%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_dataframe.cc.o
[ 69%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_dense_ndarray.cc.o
[ 72%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/soma_sparse_ndarray.cc.o
[ 75%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/array_buffers.cc.o
[ 77%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/soma/column_buffer.cc.o
[ 80%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/utils/arrow_adapter.cc.o
[ 83%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/utils/logger.cc.o
[ 86%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/utils/stats.cc.o
[ 88%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/utils/util.cc.o
[ 91%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/utils/version.cc.o
[ 94%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/external/src/thread_pool/thread_pool.cc.o
[ 97%] Building CXX object src/CMakeFiles/TILEDB_SOMA_OBJECTS.dir/external/src/thread_pool/status.cc.o
[ 97%] Built target TILEDB_SOMA_OBJECTS
[100%] Linking CXX shared library libtiledbsoma.so
[100%] Built target tiledbsoma
[ 87%] No install step for 'libtiledbsoma'
[100%] Completed 'libtiledbsoma'
[100%] Built target libtiledbsoma
+ make install-libtiledbsoma
[ 2%] Built target TILEDBSOMA_NANOARROW_OBJECT
[ 72%] Built target TILEDB_SOMA_OBJECTS
[ 97%] Built target TILEDB_SOMA_GEOMETRY_OBJECTS
[100%] Built target tiledbsoma
Install the project...
-- Install configuration: "Release"
-- Installing:$PREFIX/include/tiledbsoma/soma/enums.h
-- Installing:$PREFIX/include/tiledbsoma/soma/logger_public.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_context.h
-- Installing:$PREFIX/include/tiledbsoma/soma/managed_query.h
-- Installing:$PREFIX/include/tiledbsoma/soma/array_buffers.h
-- Installing:$PREFIX/include/tiledbsoma/soma/column_buffer.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_array.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_group.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_collection.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_dataframe.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_dense_ndarray.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_sparse_ndarray.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_experiment.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_measurement.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_scene.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_geometry_dataframe.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_point_cloud_dataframe.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_multiscale_image.h
-- Installing:$PREFIX/include/tiledbsoma/soma/soma_object.h
-- Installing:$PREFIX/include/tiledbsoma/reindexer/reindexer.h
-- Installing:$PREFIX/include/tiledbsoma/tiledbsoma
-- Installing:$PREFIX/include/tiledbsoma/utils/arrow_adapter.h
-- Installing:$PREFIX/include/tiledbsoma/utils/common.h
-- Installing:$PREFIX/include/tiledbsoma/utils/fastercsx.h
-- Installing:$PREFIX/include/tiledbsoma/utils/parallel_functions.h
-- Installing:$PREFIX/include/tiledbsoma/utils/stats.h
-- Installing:$PREFIX/include/tiledbsoma/utils/util.h
-- Installing:$PREFIX/include/tiledbsoma/utils/version.h
-- Installing:$PREFIX/include/tiledbsoma/nanoarrow/nanoarrow.h
-- Installing:$PREFIX/include/tiledbsoma/nanoarrow/nanoarrow.hpp
-- Installing:$PREFIX/include/tiledbsoma/nlohmann/json.hpp
-- Installing:$PREFIX/lib/cmake/tiledbsoma/TileDBSomaConfig.cmake
-- Installing:$PREFIX/lib/libtiledbsoma.so
-- Set non-toolchain portion of runtime path of "$PREFIX/lib/libtiledbsoma.so" to "$PREFIX/lib"
-- Installing:$PREFIX/include/tiledbsoma/tiledbsoma_export.h
-- Installing:$PREFIX/lib/cmake/tiledbsoma/TileDBSomaTargets.cmake
-- Installing:$PREFIX/lib/cmake/tiledbsoma/TileDBSomaTargets-release.cmake
-- Installing:$PREFIX/lib/pkgconfig/tiledbsoma.pc
Built target install-libtiledbsoma
+ cd ..
+ rm -rf libtiledbsoma-build
Resource usage statistics from bundling libtiledbsoma:
Process count: 18
CPU time: Sys=0:00:07.7, User=0:03:26.8
Memory: 1.5G
Disk usage: 855.2K
Time elapsed: 0:02:08.6
number of files: 37
Warning: rpath /home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/lib is outside prefix$PREFIX (removing it)
INFO: sysroot: '/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/x86_64-conda-linux-gnu/sysroot/' files: '['usr/share/zoneinfo', 'usr/share/locale/zh_TW/LC_MESSAGES/libc.mo', 'usr/share/locale/zh_CN/LC_MESSAGES/libc.mo', 'usr/share/locale/vi/LC_MESSAGES/libc.mo']'
INFO (libtiledbsoma,lib/libtiledbsoma.so): Needed DSO lib/libtiledb.so.2.26 found in conda-forge/linux-64::tiledb==2.26.2=h33a2f6d_11
INFO (libtiledbsoma,lib/libtiledbsoma.so): Needed DSO x86_64-conda-linux-gnu/sysroot/lib64/libpthread.so.0 found in CDT/compiler package conda-forge/noarch::sysroot_linux-64==2.17=h4a8ded7_18
INFO (libtiledbsoma,lib/libtiledbsoma.so): Needed DSO lib/libstdc++.so.6 found in conda-forge/linux-64::libstdcxx==14.2.0=hc0a3c3a_1
INFO (libtiledbsoma,lib/libtiledbsoma.so): Needed DSO x86_64-conda-linux-gnu/sysroot/lib64/libm.so.6 found in CDT/compiler package conda-forge/noarch::sysroot_linux-64==2.17=h4a8ded7_18
INFO (libtiledbsoma,lib/libtiledbsoma.so): Needed DSO lib/libgcc_s.so.1 found in conda-forge/linux-64::libgcc==14.2.0=h77fa898_1
INFO (libtiledbsoma,lib/libtiledbsoma.so): Needed DSO x86_64-conda-linux-gnu/sysroot/lib64/libc.so.6 found in CDT/compiler package conda-forge/noarch::sysroot_linux-64==2.17=h4a8ded7_18
INFO (libtiledbsoma,lib/libtiledbsoma.so): Needed DSO x86_64-conda-linux-gnu/sysroot/lib64/ld-linux-x86-64.so.2 found in CDT/compiler package conda-forge/noarch::sysroot_linux-64==2.17=h4a8ded7_18
WARNING (libtiledbsoma): run-exports library package conda-forge/linux-64::spdlog==1.14.1=hed91bc2_1 in requirements/run but it is not used (i.e. it is overdepending or perhaps statically linked? If that is what you want then add it to `build/ignore_run_exports`)
WARNING (libtiledbsoma): run-exports library package conda-forge/linux-64::fmt==11.0.2=h434a139_0 in requirements/run but it is not used (i.e. it is overdepending or perhaps statically linked? If that is what you want then add it to `build/ignore_run_exports`)
Fixing permissions
Adding the following extra-meta data to about.json: {'flow_run_id': '', 'remote_url': '', 'sha': ''}
Packaged license file/s.
INFO :: Time taken to mark (prefix)
0 replacements in 0 files was 0.02 seconds
Files containing CONDA_PREFIX
-----------------------------
lib/pkgconfig/tiledbsoma.pc (text): Patching
WARNING: Importing conda-verify failed. Please be sure to test your packages. conda install conda-verify to make this message go away.
Packaging r-tiledbsoma
Reloading output folder (local): ...working... done
Solving environment (_h_env): ...working... done
## Package Plan ##
environment location:$PREFIX
The following NEW packages will be INSTALLED:
_libgcc_mutex: 0.1-conda_forge conda-forge
_openmp_mutex: 4.5-2_gnu conda-forge
_r-mutex: 1.0.1-anacondar_1 conda-forge
aws-c-auth: 0.8.0-hb88c0a9_10 conda-forge
aws-c-cal: 0.8.0-hecf86a2_2 conda-forge
aws-c-common: 0.10.3-hb9d3cd8_0 conda-forge
aws-c-compression: 0.3.0-hf42f96a_2 conda-forge
aws-c-event-stream: 0.5.0-h1ffe551_7 conda-forge
aws-c-http: 0.9.1-hab05fe4_2 conda-forge
aws-c-io: 0.15.2-hdeadb07_2 conda-forge
aws-c-mqtt: 0.11.0-h7bd072d_8 conda-forge
aws-c-s3: 0.7.1-h3a84f74_3 conda-forge
aws-c-sdkutils: 0.2.1-hf42f96a_1 conda-forge
aws-checksums: 0.2.2-hf42f96a_1 conda-forge
aws-crt-cpp: 0.29.5-h21d7256_0 conda-forge
aws-sdk-cpp: 1.11.449-hdaa582e_3 conda-forge
azure-core-cpp: 1.14.0-h5cfcd09_0 conda-forge
azure-identity-cpp: 1.10.0-h113e628_0 conda-forge
azure-storage-blobs-cpp: 12.13.0-h3cf044e_1 conda-forge
azure-storage-common-cpp: 12.8.0-h736e048_1 conda-forge
azure-storage-files-datalake-cpp: 12.12.0-ha633028_1 conda-forge
binutils_impl_linux-64: 2.43-h4bf12b8_2 conda-forge
bwidget: 1.9.14-ha770c72_1 conda-forge
bzip2: 1.0.8-h4bc722e_7 conda-forge
c-ares: 1.34.3-hb9d3cd8_1 conda-forge
ca-certificates: 2024.8.30-hbcca054_0 conda-forge
cairo: 1.18.0-hebfffa5_3 conda-forge
capnproto: 1.0.2-h766bdaa_3 conda-forge
curl: 8.10.1-hbbe4b11_0 conda-forge
fmt: 11.0.2-h434a139_0 conda-forge
font-ttf-dejavu-sans-mono: 2.37-hab24e00_0 conda-forge
font-ttf-inconsolata: 3.000-h77eed37_0 conda-forge
font-ttf-source-code-pro: 2.038-h77eed37_0 conda-forge
font-ttf-ubuntu: 0.83-h77eed37_3 conda-forge
fontconfig: 2.15.0-h7e30c49_1 conda-forge
fonts-conda-ecosystem: 1-0 conda-forge
fonts-conda-forge: 1-0 conda-forge
freetype: 2.12.1-h267a509_2 conda-forge
fribidi: 1.0.10-h36c2ea0_0 conda-forge
gcc_impl_linux-64: 14.2.0-h6b349bd_1 conda-forge
gflags: 2.2.2-h5888daf_1005 conda-forge
gfortran_impl_linux-64: 14.2.0-hc73f493_1 conda-forge
glog: 0.7.1-hbabe93e_0 conda-forge
graphite2: 1.3.13-h59595ed_1003 conda-forge
gsl: 2.7-he838d99_0 conda-forge
gxx_impl_linux-64: 14.2.0-h2c03514_1 conda-forge
harfbuzz: 9.0.0-hda332d3_1 conda-forge
icu: 75.1-he02047a_0 conda-forge
kernel-headers_linux-64: 3.10.0-he073ed8_18 conda-forge
keyutils: 1.6.1-h166bdaf_0 conda-forge
krb5: 1.21.3-h659f571_0 conda-forge
ld_impl_linux-64: 2.43-h712a8e2_2 conda-forge
lerc: 4.0.0-h27087fc_0 conda-forge
libabseil: 20240722.0-cxx17_h5888daf_1 conda-forge
libarrow: 18.0.0-h4804cb8_8_cuda conda-forge
libarrow-acero: 18.0.0-h530483c_8_cuda conda-forge
libarrow-dataset: 18.0.0-h530483c_8_cuda conda-forge
libarrow-substrait: 18.0.0-hb57c354_8_cuda conda-forge
libblas: 3.9.0-25_linux64_openblas conda-forge
libbrotlicommon: 1.1.0-hb9d3cd8_2 conda-forge
libbrotlidec: 1.1.0-hb9d3cd8_2 conda-forge
libbrotlienc: 1.1.0-hb9d3cd8_2 conda-forge
libcblas: 3.9.0-25_linux64_openblas conda-forge
libcrc32c: 1.1.2-h9c3ff4c_0 conda-forge
libcurl: 8.10.1-hbbe4b11_0 conda-forge
libdeflate: 1.22-hb9d3cd8_0 conda-forge
libedit: 3.1.20191231-he28a2e2_2 conda-forge
libev: 4.33-hd590300_2 conda-forge
libevent: 2.1.12-hf998b51_1 conda-forge
libexpat: 2.6.4-h5888daf_0 conda-forge
libffi: 3.4.2-h7f98852_5 conda-forge
libgcc: 14.2.0-h77fa898_1 conda-forge
libgcc-devel_linux-64: 14.2.0-h41c2201_101 conda-forge
libgcc-ng: 14.2.0-h69a702a_1 conda-forge
libgfortran: 14.2.0-h69a702a_1 conda-forge
libgfortran-ng: 14.2.0-h69a702a_1 conda-forge
libgfortran5: 14.2.0-hd5240d6_1 conda-forge
libglib: 2.82.2-h2ff4ddf_0 conda-forge
libgomp: 14.2.0-h77fa898_1 conda-forge
libgoogle-cloud: 2.31.0-h804f50b_0 conda-forge
libgoogle-cloud-storage: 2.31.0-h0121fbd_0 conda-forge
libgrpc: 1.67.1-hc2c308b_0 conda-forge
libiconv: 1.17-hd590300_2 conda-forge
libjpeg-turbo: 3.0.0-hd590300_1 conda-forge
liblapack: 3.9.0-25_linux64_openblas conda-forge
libnghttp2: 1.64.0-h161d5f1_0 conda-forge
libopenblas: 0.3.28-pthreads_h94d23a6_1 conda-forge
libparquet: 18.0.0-hdbc8f64_8_cuda conda-forge
libpng: 1.6.44-hadc24fc_0 conda-forge
libprotobuf: 5.28.2-h5b01275_0 conda-forge
libre2-11: 2024.07.02-hbbce691_1 conda-forge
libsanitizer: 14.2.0-h2a3dede_1 conda-forge
libssh2: 1.11.1-hf672d98_0 conda-forge
libstdcxx: 14.2.0-hc0a3c3a_1 conda-forge
libstdcxx-devel_linux-64: 14.2.0-h41c2201_101 conda-forge
libstdcxx-ng: 14.2.0-h4852527_1 conda-forge
libthrift: 0.21.0-h0e7cc3e_0 conda-forge
libtiff: 4.7.0-he137b08_1 conda-forge
libtiledbsoma: 1.15.0rc3-hc73c20e_1 local
libutf8proc: 2.8.0-h166bdaf_0 conda-forge
libuuid: 2.38.1-h0b41bf4_0 conda-forge
libwebp-base: 1.4.0-hd590300_0 conda-forge
libxcb: 1.17.0-h8a09558_0 conda-forge
libxml2: 2.13.5-hb346dea_0 conda-forge
libzlib: 1.3.1-hb9d3cd8_2 conda-forge
lz4-c: 1.9.4-hcb278e6_0 conda-forge
make: 4.4.1-hb9d3cd8_2 conda-forge
ncurses: 6.5-he02047a_1 conda-forge
openssl: 3.4.0-hb9d3cd8_0 conda-forge
orc: 2.0.3-he039a57_0 conda-forge
pango: 1.54.0-h4c5309f_1 conda-forge
pcre2: 10.44-hba22ea6_2 conda-forge
pixman: 0.43.2-h59595ed_0 conda-forge
pthread-stubs: 0.4-hb9d3cd8_1002 conda-forge
r-arrow: 18.0.0-r43h5888daf_0 conda-forge
r-assertthat: 0.2.1-r43hc72bb7e_5 conda-forge
r-base: 4.3.3-h68df6d5_15 conda-forge
r-bit: 4.5.0-r43h2b5f3a1_0 conda-forge
r-bit64: 4.5.2-r43h2b5f3a1_0 conda-forge
r-cli: 3.6.3-r43h0d4f4ea_1 conda-forge
r-crayon: 1.5.3-r43hc72bb7e_1 conda-forge
r-data.table: 1.15.4-r43h5f06984_1 conda-forge
r-dplyr: 1.1.4-r43h0d4f4ea_1 conda-forge
r-ellipsis: 0.3.2-r43hb1dbf0f_3 conda-forge
r-fansi: 1.0.6-r43hb1dbf0f_1 conda-forge
r-fs: 1.6.5-r43h93ab643_0 conda-forge
r-generics: 0.1.3-r43hc72bb7e_3 conda-forge
r-glue: 1.8.0-r43h2b5f3a1_0 conda-forge
r-lattice: 0.22_6-r43hb1dbf0f_1 conda-forge
r-lifecycle: 1.0.4-r43hc72bb7e_1 conda-forge
r-magrittr: 2.0.3-r43hb1dbf0f_3 conda-forge
r-matrix: 1.6_5-r43he966344_1 conda-forge
r-nanoarrow: 0.6.0-r43h93ab643_0 conda-forge
r-nanotime: 0.3.10-r43h93ab643_0 conda-forge
r-pillar: 1.9.0-r43hc72bb7e_2 conda-forge
r-pkgconfig: 2.0.3-r43hc72bb7e_4 conda-forge
r-purrr: 1.0.2-r43hdb488b9_1 conda-forge
r-r6: 2.5.1-r43hc72bb7e_3 conda-forge
r-rcpp: 1.0.13_1-r43h93ab643_0 conda-forge
r-rcppcctz: 0.2.12-r43h0d4f4ea_3 conda-forge
r-rcppdate: 0.0.4-r43hc72bb7e_0 conda-forge
r-rcppint64: 0.0.4-r43h0d4f4ea_1 conda-forge
r-rcppspdlog: 0.0.19-r43h93ab643_0 conda-forge
r-rlang: 1.1.4-r43ha18555a_1 conda-forge
r-spdl: 0.0.5-r43hc72bb7e_1 conda-forge
r-tibble: 3.2.1-r43hdb488b9_3 conda-forge
r-tidyselect: 1.2.1-r43hc72bb7e_1 conda-forge
r-tiledb: 0.30.2-r43h84d6215_1 conda-forge
r-triebeard: 0.4.1-r43ha18555a_2 conda-forge
r-urltools: 1.7.3-r43ha18555a_5 conda-forge
r-utf8: 1.2.4-r43hb1dbf0f_1 conda-forge
r-vctrs: 0.6.5-r43h0d4f4ea_1 conda-forge
r-withr: 3.0.2-r43hc72bb7e_0 conda-forge
r-zoo: 1.8_12-r43hb1dbf0f_2 conda-forge
re2: 2024.07.02-h77b4e00_1 conda-forge
readline: 8.2-h8228510_1 conda-forge
s2n: 1.5.9-h0fd0ee4_0 conda-forge
sed: 4.8-he412f7d_0 conda-forge
snappy: 1.2.1-ha2e4443_0 conda-forge
spdlog: 1.14.1-hed91bc2_1 conda-forge
sysroot_linux-64: 2.17-h4a8ded7_18 conda-forge
tiledb: 2.26.2-h33a2f6d_11 conda-forge
tk: 8.6.13-noxft_h4845f30_101 conda-forge
tktable: 2.10-h8bc8fbc_6 conda-forge
tzdata: 2024b-hc8b5060_0 conda-forge
xorg-libice: 1.1.1-hb9d3cd8_1 conda-forge
xorg-libsm: 1.2.4-he73a12e_1 conda-forge
xorg-libx11: 1.8.10-h4f16b4b_0 conda-forge
xorg-libxau: 1.0.11-hb9d3cd8_1 conda-forge
xorg-libxdmcp: 1.1.5-hb9d3cd8_0 conda-forge
xorg-libxext: 1.3.6-hb9d3cd8_0 conda-forge
xorg-libxrender: 0.9.11-hb9d3cd8_1 conda-forge
xorg-libxt: 1.3.1-hb9d3cd8_0 conda-forge
xorg-xorgproto: 2024.1-hb9d3cd8_1 conda-forge
xz: 5.2.6-h166bdaf_0 conda-forge
zlib: 1.3.1-hb9d3cd8_2 conda-forge
zstd: 1.5.6-ha6fb4c9_0 conda-forge
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Reloading output folder (local): ...working... done
Solving environment (_build_env): ...working... done
## Package Plan ##
environment location: /home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env
The following NEW packages will be INSTALLED:
_libgcc_mutex: 0.1-conda_forge conda-forge
_openmp_mutex: 4.5-2_gnu conda-forge
binutils_impl_linux-64: 2.43-h4bf12b8_2 conda-forge
binutils_linux-64: 2.43-h4852527_2 conda-forge
gcc_impl_linux-64: 13.3.0-hfea6d02_1 conda-forge
gcc_linux-64: 13.3.0-hc28eda2_7 conda-forge
gxx_impl_linux-64: 13.3.0-hdbfa832_1 conda-forge
gxx_linux-64: 13.3.0-h6834431_7 conda-forge
kernel-headers_linux-64: 3.10.0-he073ed8_18 conda-forge
ld_impl_linux-64: 2.43-h712a8e2_2 conda-forge
libgcc: 14.2.0-h77fa898_1 conda-forge
libgcc-devel_linux-64: 13.3.0-h84ea5a7_101 conda-forge
libgcc-ng: 14.2.0-h69a702a_1 conda-forge
libgomp: 14.2.0-h77fa898_1 conda-forge
libsanitizer: 13.3.0-heb74ff8_1 conda-forge
libstdcxx: 14.2.0-hc0a3c3a_1 conda-forge
libstdcxx-devel_linux-64: 13.3.0-h84ea5a7_101 conda-forge
pkg-config: 0.29.2-h4bc722e_1009 conda-forge
sysroot_linux-64: 2.17-h4a8ded7_18 conda-forge
tzdata: 2024b-hc8b5060_0 conda-forge
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
INFO: activate-binutils_linux-64.sh made the following environmental changes:
+ADDR2LINE=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-addr2line
+AR=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-ar
+AS=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-as
+CXXFILT=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++filt
+DWP=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-dwp
+ELFEDIT=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-elfedit
+GPROF=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-gprof
+LD_GOLD=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-ld.gold
+LD=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-ld
+NM=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-nm
+OBJCOPY=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-objcopy
+OBJDUMP=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-objdump
+RANLIB=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-ranlib
+READELF=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-readelf
+SIZE=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-size
+STRINGS=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-strings
+STRIP=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-strip
INFO: activate-gcc_linux-64.sh made the following environmental changes:
+build_alias=x86_64-conda-linux-gnu
-BUILD=x86_64-conda_cos6-linux-gnu
+BUILD=x86_64-conda-linux-gnu
+CC_FOR_BUILD=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-cc
+CC=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-cc
+CFLAGS=-march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem$PREFIX/include -fdebug-prefix-map=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/work=/usr/local/src/conda/r-tiledbsoma-1.15.0rc3 -fdebug-prefix-map=$PREFIX=/usr/local/src/conda-prefix
+CMAKE_ARGS=-DCMAKE_AR=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-ar -DCMAKE_CXX_COMPILER_AR=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-gcc-ar -DCMAKE_C_COMPILER_AR=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-gcc-ar -DCMAKE_RANLIB=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-ranlib -DCMAKE_CXX_COMPILER_RANLIB=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-gcc-ranlib -DCMAKE_C_COMPILER_RANLIB=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-gcc-ranlib -DCMAKE_LINKER=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-ld -DCMAKE_STRIP=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-strip -DCMAKE_BUILD_TYPE=Release -DCMAKE_FIND_ROOT_PATH_MODE_PROGRAM=NEVER -DCMAKE_FIND_ROOT_PATH_MODE_LIBRARY=ONLY -DCMAKE_FIND_ROOT_PATH_MODE_INCLUDE=ONLY -DCMAKE_FIND_ROOT_PATH=$PREFIX;/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/x86_64-conda-linux-gnu/sysroot -DCMAKE_INSTALL_PREFIX=$PREFIX -DCMAKE_INSTALL_LIBDIR=lib -DCMAKE_PROGRAM_PATH=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin;$PREFIX/bin
+CMAKE_PREFIX_PATH=$PREFIX:/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/x86_64-conda-linux-gnu/sysroot/usr
+CONDA_BUILD_SYSROOT=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/x86_64-conda-linux-gnu/sysroot
+_CONDA_PYTHON_SYSCONFIGDATA_NAME=_sysconfigdata_x86_64_conda_cos6_linux_gnu
+CONDA_TOOLCHAIN_BUILD=x86_64-conda-linux-gnu
+CONDA_TOOLCHAIN_HOST=x86_64-conda-linux-gnu
+CPPFLAGS=-DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem$PREFIX/include
+CPP=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-cpp
+DEBUG_CFLAGS=-march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-all -fno-plt -Og -g -Wall -Wextra -fvar-tracking-assignments -ffunction-sections -pipe -isystem$PREFIX/include -fdebug-prefix-map=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/work=/usr/local/src/conda/r-tiledbsoma-1.15.0rc3 -fdebug-prefix-map=$PREFIX=/usr/local/src/conda-prefix
+DEBUG_CPPFLAGS=-D_DEBUG -D_FORTIFY_SOURCE=2 -Og -isystem$PREFIX/include
+GCC_AR=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-gcc-ar
+GCC=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-gcc
+GCC_NM=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-gcc-nm
+GCC_RANLIB=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-gcc-ranlib
+host_alias=x86_64-conda-linux-gnu
+HOST=x86_64-conda-linux-gnu
+LDFLAGS=-Wl,-O2 -Wl,--sort-common -Wl,--as-needed -Wl,-z,relro -Wl,-z,now -Wl,--disable-new-dtags -Wl,--gc-sections -Wl,--allow-shlib-undefined -Wl,-rpath,$PREFIX/lib -Wl,-rpath-link,$PREFIX/lib -L$PREFIX/lib
+MESON_ARGS=-Dbuildtype=release --prefix=$PREFIX -Dlibdir=lib
INFO: activate-gxx_linux-64.sh made the following environmental changes:
+CXXFLAGS=-fvisibility-inlines-hidden -fmessage-length=0 -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -isystem$PREFIX/include -fdebug-prefix-map=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/work=/usr/local/src/conda/r-tiledbsoma-1.15.0rc3 -fdebug-prefix-map=$PREFIX=/usr/local/src/conda-prefix
+CXX_FOR_BUILD=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++
+CXX=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++
+DEBUG_CXXFLAGS=-fvisibility-inlines-hidden -fmessage-length=0 -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-all -fno-plt -Og -g -Wall -Wextra -fvar-tracking-assignments -ffunction-sections -pipe -isystem$PREFIX/include -fdebug-prefix-map=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/work=/usr/local/src/conda/r-tiledbsoma-1.15.0rc3 -fdebug-prefix-map=$PREFIX=/usr/local/src/conda-prefix
+GXX=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-g++
+ cd apis/r
+ export DISABLE_AUTOBREW=1
+ DISABLE_AUTOBREW=1
+ set +x
----------------------------------------------------------------
build-r-tiledbsoma.sh ORIGINAL VARIABLES:
CC [/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-cc]
CXX [/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++]
CXX20 []
CXX_STD []
----------------------------------------------------------------
+ export 'CC=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-cc -std=c++20'
+ CC='/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-cc -std=c++20'
+ export 'CXX=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20'
+ CXX='/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20'
+ export 'CXX20=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20'
+ CXX20='/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20'
+ export CXX_STD=CXX20
+ CXX_STD=CXX20
+ export 'CXX20FLAGS=-Wno-deprecated-declarations -Wno-deprecated'
+ CXX20FLAGS='-Wno-deprecated-declarations -Wno-deprecated'
+ set +x
----------------------------------------------------------------
build-r-tiledbsoma.sh UPDATED VARIABLES:
CC [/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-cc -std=c++20]
CXX [/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20]
CXX20 [/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20]
CXX_STD [CXX20]
----------------------------------------------------------------
+ mkdir -p /home/conda/.R
+ [[ linux-64 == osx-64 ]]
+ echo 'CC=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-cc -std=c++20'
+ echo 'CXX=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20'
+ echo 'CXX20=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20'
+ echo CXX_STD=CXX20
+ set +x
----------------------------------------------------------------
build-r-tiledbsoma.sh MAKEVARS:
CC=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-cc -std=c++20
CXX=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20
CXX20=/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20
CXX_STD=CXX20
----------------------------------------------------------------
+ [[ linux-64 == osx-* ]]
+ R_ARGS_EXTRA=--clean
+ [[ linux-64 == osx-arm64 ]]
++ Rscript -e 'cat(length(unclass(arrow::arrow_info())) == 6)'
+ res=TRUE
+ '[' TRUE '!=' TRUE ']'
+$PREFIX/bin/R CMD INSTALL --clean --build .
* installing to library ‘$PREFIX/lib/R/library’
* installing *source* package ‘tiledbsoma’ ...
** using staged installation
** updated src/Makevars for system library via pkg-config
** libs
using C++ compiler: ‘x86_64-conda-linux-gnu-c++ (conda-forge gcc 13.3.0-1) 13.3.0’
using C++20
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20 -I"$PREFIX/lib/R/include" -DNDEBUG -I. -I../inst/include/ -I$PREFIX/include -I$PREFIX/include/tiledbsoma -D SPDLOG_USE_STD_FORMAT -I'$PREFIX/lib/R/library/Rcpp/include' -I'$PREFIX/lib/R/library/RcppSpdlog/include' -I'$PREFIX/lib/R/library/RcppInt64/include' -I'$PREFIX/lib/R/library/nanoarrow/include' -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem$PREFIX/include -I$PREFIX/include -Wl,-rpath-link,$PREFIX/lib -c RcppExports.cpp -o RcppExports.o
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20 -I"$PREFIX/lib/R/include" -DNDEBUG -I. -I../inst/include/ -I$PREFIX/include -I$PREFIX/include/tiledbsoma -D SPDLOG_USE_STD_FORMAT -I'$PREFIX/lib/R/library/Rcpp/include' -I'$PREFIX/lib/R/library/RcppSpdlog/include' -I'$PREFIX/lib/R/library/RcppInt64/include' -I'$PREFIX/lib/R/library/nanoarrow/include' -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem$PREFIX/include -I$PREFIX/include -Wl,-rpath-link,$PREFIX/lib -c arrow.cpp -o arrow.o
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20 -I"$PREFIX/lib/R/include" -DNDEBUG -I. -I../inst/include/ -I$PREFIX/include -I$PREFIX/include/tiledbsoma -D SPDLOG_USE_STD_FORMAT -I'$PREFIX/lib/R/library/Rcpp/include' -I'$PREFIX/lib/R/library/RcppSpdlog/include' -I'$PREFIX/lib/R/library/RcppInt64/include' -I'$PREFIX/lib/R/library/nanoarrow/include' -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem$PREFIX/include -I$PREFIX/include -Wl,-rpath-link,$PREFIX/lib -c groups.cpp -o groups.o
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20 -I"$PREFIX/lib/R/include" -DNDEBUG -I. -I../inst/include/ -I$PREFIX/include -I$PREFIX/include/tiledbsoma -D SPDLOG_USE_STD_FORMAT -I'$PREFIX/lib/R/library/Rcpp/include' -I'$PREFIX/lib/R/library/RcppSpdlog/include' -I'$PREFIX/lib/R/library/RcppInt64/include' -I'$PREFIX/lib/R/library/nanoarrow/include' -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem$PREFIX/include -I$PREFIX/include -Wl,-rpath-link,$PREFIX/lib -c metadata.cpp -o metadata.o
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20 -I"$PREFIX/lib/R/include" -DNDEBUG -I. -I../inst/include/ -I$PREFIX/include -I$PREFIX/include/tiledbsoma -D SPDLOG_USE_STD_FORMAT -I'$PREFIX/lib/R/library/Rcpp/include' -I'$PREFIX/lib/R/library/RcppSpdlog/include' -I'$PREFIX/lib/R/library/RcppInt64/include' -I'$PREFIX/lib/R/library/nanoarrow/include' -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem$PREFIX/include -I$PREFIX/include -Wl,-rpath-link,$PREFIX/lib -c query_condition.cpp -o query_condition.o
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20 -I"$PREFIX/lib/R/include" -DNDEBUG -I. -I../inst/include/ -I$PREFIX/include -I$PREFIX/include/tiledbsoma -D SPDLOG_USE_STD_FORMAT -I'$PREFIX/lib/R/library/Rcpp/include' -I'$PREFIX/lib/R/library/RcppSpdlog/include' -I'$PREFIX/lib/R/library/RcppInt64/include' -I'$PREFIX/lib/R/library/nanoarrow/include' -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem$PREFIX/include -I$PREFIX/include -Wl,-rpath-link,$PREFIX/lib -c reindexer.cpp -o reindexer.o
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20 -I"$PREFIX/lib/R/include" -DNDEBUG -I. -I../inst/include/ -I$PREFIX/include -I$PREFIX/include/tiledbsoma -D SPDLOG_USE_STD_FORMAT -I'$PREFIX/lib/R/library/Rcpp/include' -I'$PREFIX/lib/R/library/RcppSpdlog/include' -I'$PREFIX/lib/R/library/RcppInt64/include' -I'$PREFIX/lib/R/library/nanoarrow/include' -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem$PREFIX/include -I$PREFIX/include -Wl,-rpath-link,$PREFIX/lib -c rinterface.cpp -o rinterface.o
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20 -I"$PREFIX/lib/R/include" -DNDEBUG -I. -I../inst/include/ -I$PREFIX/include -I$PREFIX/include/tiledbsoma -D SPDLOG_USE_STD_FORMAT -I'$PREFIX/lib/R/library/Rcpp/include' -I'$PREFIX/lib/R/library/RcppSpdlog/include' -I'$PREFIX/lib/R/library/RcppInt64/include' -I'$PREFIX/lib/R/library/nanoarrow/include' -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem$PREFIX/include -I$PREFIX/include -Wl,-rpath-link,$PREFIX/lib -c riterator.cpp -o riterator.o
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20 -I"$PREFIX/lib/R/include" -DNDEBUG -I. -I../inst/include/ -I$PREFIX/include -I$PREFIX/include/tiledbsoma -D SPDLOG_USE_STD_FORMAT -I'$PREFIX/lib/R/library/Rcpp/include' -I'$PREFIX/lib/R/library/RcppSpdlog/include' -I'$PREFIX/lib/R/library/RcppInt64/include' -I'$PREFIX/lib/R/library/nanoarrow/include' -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem$PREFIX/include -I$PREFIX/include -Wl,-rpath-link,$PREFIX/lib -c rutilities.cpp -o rutilities.o
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20 -I"$PREFIX/lib/R/include" -DNDEBUG -I. -I../inst/include/ -I$PREFIX/include -I$PREFIX/include/tiledbsoma -D SPDLOG_USE_STD_FORMAT -I'$PREFIX/lib/R/library/Rcpp/include' -I'$PREFIX/lib/R/library/RcppSpdlog/include' -I'$PREFIX/lib/R/library/RcppInt64/include' -I'$PREFIX/lib/R/library/nanoarrow/include' -DNDEBUG -D_FORTIFY_SOURCE=2 -O2 -isystem$PREFIX/include -I$PREFIX/include -Wl,-rpath-link,$PREFIX/lib -c soma.cpp -o soma.o
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/x86_64-conda-linux-gnu-c++ -std=c++20 -shared -L$PREFIX/lib/R/lib -Wl,-O2 -Wl,--sort-common -Wl,--as-needed -Wl,-z,relro -Wl,-z,now -Wl,--disable-new-dtags -Wl,--gc-sections -Wl,--allow-shlib-undefined -Wl,-rpath,$PREFIX/lib -Wl,-rpath-link,$PREFIX/lib -L$PREFIX/lib -o tiledbsoma.so RcppExports.o arrow.o groups.o metadata.o query_condition.o reindexer.o rinterface.o riterator.o rutilities.o soma.o -L$PREFIX/lib -ltiledb -ltiledbsoma -L$PREFIX/lib/R/lib -lR
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/../lib/gcc/x86_64-conda-linux-gnu/13.3.0/../../../../x86_64-conda-linux-gnu/bin/ld: rutilities.o: warning: relocation against `_ZTVSt19_Sp_counted_deleterIP25tiledb_dimension_handle_tN6tiledb4impl7DeleterESaIvELN9__gnu_cxx12_Lock_policyE2EE' in read-only section `.text._ZNK6tiledb6Domain9dimensionERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE[_ZNK6tiledb6Domain9dimensionERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEE]'
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/../lib/gcc/x86_64-conda-linux-gnu/13.3.0/../../../../x86_64-conda-linux-gnu/bin/ld: RcppExports.o: relocation R_X86_64_PC32 against symbol `R_NilValue' can not be used when making a shared object; recompile with -fPIC
/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/_build_env/bin/../lib/gcc/x86_64-conda-linux-gnu/13.3.0/../../../../x86_64-conda-linux-gnu/bin/ld: final link failed: bad value
collect2: error: ld returned 1 exit status
make: *** [$PREFIX/lib/R/share/make/shlib.mk:10: tiledbsoma.so] Error 1
ERROR: compilation failed for package ‘tiledbsoma’
* removing ‘$PREFIX/lib/R/library/tiledbsoma’
Traceback (most recent call last):
File "/opt/conda/lib/python3.12/site-packages/conda_build/build.py", line 1785, in bundle_conda
utils.check_call_env(
File "/opt/conda/lib/python3.12/site-packages/conda_build/utils.py", line 404, in check_call_env
return _func_defaulting_env_to_os_environ("call", *popenargs, **kwargs)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.12/site-packages/conda_build/utils.py", line 380, in _func_defaulting_env_to_os_environ
raise subprocess.CalledProcessError(proc.returncode, _args)
subprocess.CalledProcessError: Command '['/usr/bin/bash', '-e', '/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/work/build-r-tiledbsoma.sh']' returned non-zero exit status 1.
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/opt/conda/bin/conda-build", line 11, in <module>
sys.exit(execute())
^^^^^^^^^
File "/opt/conda/lib/python3.12/site-packages/conda_build/cli/main_build.py", line 589, in execute
api.build(
File "/opt/conda/lib/python3.12/site-packages/conda_build/api.py", line 209, in build
return build_tree(
^^^^^^^^^^^
File "/opt/conda/lib/python3.12/site-packages/conda_build/build.py", line 3655, in build_tree
packages_from_this = build(
^^^^^^
File "/opt/conda/lib/python3.12/site-packages/conda_build/build.py", line 2762, in build
newly_built_packages = bundlers[pkg_type](
^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.12/site-packages/conda_build/build.py", line 1792, in bundle_conda
raise BuildScriptException(str(exc), caused_by=exc) from exc
conda_build.exceptions.BuildScriptException: Command '['/usr/bin/bash', '-e', '/home/conda/feedstock_root/build_artifacts/tiledbsoma_1732469154194/work/build-r-tiledbsoma.sh']' returned non-zero exit status 1.
Traceback (most recent call last):
File "/home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock/./build-locally.py", line 109, in <module>
main()
File "/home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock/./build-locally.py", line 97, in main
run_docker_build(ns)
File "/home/ubuntu/git/TileDB-Inc/tiledbsoma-feedstock/./build-locally.py", line 32, in run_docker_build
subprocess.check_call([script])
File "/home/ubuntu/.pyenv/versions/3.11.9/lib/python3.11/subprocess.py", line 413, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['.scripts/run_docker_build.sh']' returned non-zero exit status 1.
?2004h
1;38;5;208mubuntu1;38;5;94m@1;38;5;208manzo1;38;5;94m[prod][troubleshoot-cpp20][tiledbsoma-feedstock]$ 0m?2004l
exit
Script done on 2024-11-24 17:58:19+00:00 [COMMAND_EXIT_CODE="1"]
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