CI failing when merging to master

[MargaretDuff]

Description

When merging to master, it is common that the first run of the CI the tests on the build/conda matrix fail with this error:

Channels: - conda-forge - defaults Platform: linux-64 Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done

Package Plan

environment location: /usr/share/miniconda/envs/test

added / updated specs:
- boa

The following packages will be downloaded:

package                    |            build
---------------------------|-----------------
anyio-3.7.1                |     pyhd8ed1ab_0          94 KB  conda-forge
archspec-0.2.3             |     pyhd8ed1ab_0          48 KB  conda-forge
attrs-24.3.0               |     pyh71513ae_0          55 KB  conda-forge
beautifulsoup4-4.12.3      |     pyha770c72_1         115 KB  conda-forge
boa-0.17.0                 |     pyhd8ed1ab_3          66 KB  conda-forge
boltons-24.0.0             |     pyhd8ed1ab_1         290 KB  conda-forge
brotli-python-1.1.0        |  py310hf71b8c6_2         341 KB  conda-forge
c-ares-1.34.4              |       hb9d3cd8_0         201 KB  conda-forge
cffi-1.17.1                |  py310h8deb56e_0         238 KB  conda-forge
chardet-5.2.0              |  py310hff52083_2         238 KB  conda-forge
charset-normalizer-3.4.1   |     pyhd8ed1ab_0          46 KB  conda-forge
click-8.1.8                |     pyh707e725_0          83 KB  conda-forge
colorama-0.4.6             |     pyhd8ed1ab_1          26 KB  conda-forge
conda-24.11.2              |  py310hff52083_1         906 KB  conda-forge
conda-build-24.5.1         |  py310hff52083_0         572 KB  conda-forge
conda-index-0.5.0          |     pyhd8ed1ab_0         180 KB  conda-forge
conda-libmamba-solver-24.9.0|     pyhd8ed1ab_0          41 KB  conda-forge
conda-package-handling-2.4.0|     pyha770c72_1         252 KB  conda-forge
conda-package-streaming-0.11.0|     pyhd8ed1ab_0          20 KB  conda-forge
distro-1.9.0               |     pyhd8ed1ab_1          41 KB  conda-forge
exceptiongroup-1.2.2       |     pyhd8ed1ab_1          20 KB  conda-forge
filelock-3.16.1            |     pyhd8ed1ab_1          17 KB  conda-forge
frozendict-2.4.6           |  py310ha75aee5_0          48 KB  conda-forge
h2-4.1.0                   |     pyhd8ed1ab_1          51 KB  conda-forge
hpack-4.0.0                |     pyhd8ed1ab_1          29 KB  conda-forge
hyperframe-6.0.1           |     pyhd8ed1ab_1          17 KB  conda-forge
idna-3.10                  |     pyhd8ed1ab_1          49 KB  conda-forge
importlib_resources-6.5.2  |     pyhd8ed1ab_0          33 KB  conda-forge
jinja2-3.1.5               |     pyhd8ed1ab_0         110 KB  conda-forge
joblib-1.4.2               |     pyhd8ed1ab_1         215 KB  conda-forge
json5-0.10.0               |     pyhd8ed1ab_1          31 KB  conda-forge
jsonpatch-1.33             |     pyhd8ed1ab_1          17 KB  conda-forge
jsonpointer-3.0.0          |  py310hff52083_1          15 KB  conda-forge
jsonschema-4.23.0          |     pyhd8ed1ab_1          73 KB  conda-forge
jsonschema-specifications-2024.10.1|     pyhd8ed1ab_1          16 KB  conda-forge
keyutils-1.6.1             |       h166bdaf_0         115 KB  conda-forge
krb5-1.21.3                |       h659f571_0         1.3 MB  conda-forge
libarchive-3.7.7           |       h4585015_3         857 KB  conda-forge
libcurl-8.11.1             |       h332b0f4_0         413 KB  conda-forge
libedit-3.1.20240808       | pl5321h7949ede_0         132 KB  conda-forge
libev-4.33                 |       hd590300_2         110 KB  conda-forge
libiconv-1.17              |       hd590300_2         689 KB  conda-forge
liblief-0.14.1             |       h5888daf_2         1.8 MB  conda-forge
libmambapy-1.5.12          |  py310h446c2ae_0         322 KB  conda-forge
libnghttp2-1.64.0          |       h161d5f1_0         632 KB  conda-forge
libsolv-0.7.30             |       h3509ff9_0         460 KB  conda-forge
libssh2-1.11.1             |       hf672d98_0         297 KB  conda-forge
libxml2-2.13.5             |       h0d44e9d_1         674 KB  conda-forge
lz4-c-1.10.0               |       h5888daf_1         163 KB  conda-forge
lzo-2.10                   |    hd590300_1001         167 KB  conda-forge
markdown-it-py-3.0.0       |     pyhd8ed1ab_1          63 KB  conda-forge
markupsafe-3.0.2           |  py310h89163eb_1          23 KB  conda-forge
mdurl-0.1.2                |     pyhd8ed1ab_1          14 KB  conda-forge
menuinst-2.2.0             |  py310hff52083_0         137 KB  conda-forge
more-itertools-10.5.0      |     pyhd8ed1ab_1          56 KB  conda-forge
packaging-24.2             |     pyhd8ed1ab_2          59 KB  conda-forge
patch-2.7.6                |    h7f98852_1002         121 KB  conda-forge
patchelf-0.17.2            |       h58526e2_0          92 KB  conda-forge
pkginfo-1.12.0             |     pyhd8ed1ab_1          30 KB  conda-forge
pkgutil-resolve-name-1.3.10|     pyhd8ed1ab_2          10 KB  conda-forge
platformdirs-4.3.6         |     pyhd8ed1ab_1          20 KB  conda-forge
pluggy-1.5.0               |     pyhd8ed1ab_1          23 KB  conda-forge
prompt-toolkit-3.0.48      |     pyha770c72_1         264 KB  conda-forge
prompt_toolkit-3.0.48      |       hd8ed1ab_1           6 KB  conda-forge
psutil-6.1.1               |  py310ha75aee5_0         360 KB  conda-forge
py-lief-0.14.1             |  py310hf71b8c6_2         740 KB  conda-forge
pycosat-0.6.6              |  py310ha75aee5_2          83 KB  conda-forge
pycparser-2.22             |     pyh29332c3_1         108 KB  conda-forge
pygments-2.19.1            |     pyhd8ed1ab_0         868 KB  conda-forge
pysocks-1.7.1              |     pyha55dd90_7          21 KB  conda-forge
python-libarchive-c-5.1    |  py310hff52083_1          61 KB  conda-forge
python_abi-3.10            |          5_cp310           6 KB  conda-forge
pytz-2024.2                |     pyhd8ed1ab_1         182 KB  conda-forge
pyyaml-6.0.2               |  py310ha75aee5_1         178 KB  conda-forge
referencing-0.35.1         |     pyhd8ed1ab_1          41 KB  conda-forge
reproc-14.2.5.post0        |       hb9d3cd8_0          33 KB  conda-forge
reproc-cpp-14.2.5.post0    |       h5888daf_0          25 KB  conda-forge
requests-2.32.3            |     pyhd8ed1ab_1          57 KB  conda-forge
rich-13.9.4                |     pyhd8ed1ab_1         181 KB  conda-forge
ripgrep-14.1.1             |       h8fae777_0         1.6 MB  conda-forge
rpds-py-0.22.3             |  py310h505e2c1_0         344 KB  conda-forge
ruamel.yaml-0.18.10        |  py310ha75aee5_0         198 KB  conda-forge
ruamel.yaml.clib-0.2.8     |  py310ha75aee5_1         143 KB  conda-forge
sniffio-1.3.1              |     pyhd8ed1ab_1          15 KB  conda-forge
soupsieve-2.5              |     pyhd8ed1ab_1          36 KB  conda-forge
tomli-2.2.1                |     pyhd8ed1ab_1          19 KB  conda-forge
tqdm-4.67.1                |     pyhd8ed1ab_1          87 KB  conda-forge
truststore-0.10.0          |     pyhd8ed1ab_0          21 KB  conda-forge
typing_extensions-4.12.2   |     pyha770c72_1          39 KB  conda-forge
urllib3-2.3.0              |     pyhd8ed1ab_0          98 KB  conda-forge
watchgod-0.8.2             |     pyhd8ed1ab_1          17 KB  conda-forge
wcwidth-0.2.13             |     pyhd8ed1ab_1          32 KB  conda-forge
yaml-0.2.5                 |       h7f98852_2          87 KB  conda-forge
yaml-cpp-0.8.0             |       h59595ed_0         200 KB  conda-forge
zipp-3.21.0                |     pyhd8ed1ab_1          21 KB  conda-forge
zstandard-0.23.0           |  py310ha39cb0e_1         399 KB  conda-forge
zstd-1.5.6                 |       ha6fb4c9_0         542 KB  conda-forge
------------------------------------------------------------
                                       Total:        20.1 MB

The following NEW packages will be INSTALLED:

anyio conda-forge/noarch::anyio-3.7.1-pyhd8ed1ab_0
archspec conda-forge/noarch::archspec-0.2.3-pyhd8ed1ab_0
attrs conda-forge/noarch::attrs-24.3.0-pyh71513ae_0
beautifulsoup4 conda-forge/noarch::beautifulsoup4-4.12.3-pyha770c72_1
boa conda-forge/noarch::boa-0.17.0-pyhd8ed1ab_3
boltons conda-forge/noarch::boltons-24.0.0-pyhd8ed1ab_1
brotli-python conda-forge/linux-64::brotli-python-1.1.0-py310hf71b8c6_2
c-ares conda-forge/linux-64::c-ares-1.34.4-hb9d3cd8_0
certifi conda-forge/noarch::certifi-2024.12.14-pyhd8ed1ab_0
cffi conda-forge/linux-64::cffi-1.17.1-py310h8deb56e_0
chardet conda-forge/linux-64::chardet-5.2.0-py310hff52083_2
charset-normalizer conda-forge/noarch::charset-normalizer-3.4.1-pyhd8ed1ab_0
click conda-forge/noarch::click-8.1.8-pyh707e725_0
colorama conda-forge/noarch::colorama-0.4.6-pyhd8ed1ab_1
conda conda-forge/linux-64::conda-24.11.2-py310hff52083_1
conda-build conda-forge/linux-64::conda-build-24.5.1-py310hff52083_0
conda-index conda-forge/noarch::conda-index-0.5.0-pyhd8ed1ab_0
conda-libmamba-so~ conda-forge/noarch::conda-libmamba-solver-24.9.0-pyhd8ed1ab_0
conda-package-han~ conda-forge/noarch::conda-package-handling-2.4.0-pyha770c72_1
conda-package-str~ conda-forge/noarch::conda-package-streaming-0.11.0-pyhd8ed1ab_0
distro conda-forge/noarch::distro-1.9.0-pyhd8ed1ab_1
exceptiongroup conda-forge/noarch::exceptiongroup-1.2.2-pyhd8ed1ab_1
filelock conda-forge/noarch::filelock-3.16.1-pyhd8ed1ab_1
fmt conda-forge/linux-64::fmt-11.0.2-h434a139_0
frozendict conda-forge/linux-64::frozendict-2.4.6-py310ha75aee5_0
h2 conda-forge/noarch::h2-4.1.0-pyhd8ed1ab_1
hpack conda-forge/noarch::hpack-4.0.0-pyhd8ed1ab_1
hyperframe conda-forge/noarch::hyperframe-6.0.1-pyhd8ed1ab_1
idna conda-forge/noarch::idna-3.10-pyhd8ed1ab_1
importlib_resourc~ conda-forge/noarch::importlib_resources-6.5.2-pyhd8ed1ab_0
jinja2 conda-forge/noarch::jinja2-3.1.5-pyhd8ed1ab_0
joblib conda-forge/noarch::joblib-1.4.2-pyhd8ed1ab_1
json5 conda-forge/noarch::json5-0.10.0-pyhd8ed1ab_1
jsonpatch conda-forge/noarch::jsonpatch-1.33-pyhd8ed1ab_1
jsonpointer conda-forge/linux-64::jsonpointer-3.0.0-py310hff52083_1
jsonschema conda-forge/noarch::jsonschema-4.23.0-pyhd8ed1ab_1
jsonschema-specif~ conda-forge/noarch::jsonschema-specifications-2024.10.1-pyhd8ed1ab_1
keyutils conda-forge/linux-64::keyutils-1.6.1-h166bdaf_0
krb5 conda-forge/linux-64::krb5-1.21.3-h659f571_0
libarchive conda-forge/linux-64::libarchive-3.7.7-h4585015_3
libcurl conda-forge/linux-64::libcurl-8.11.1-h332b0f4_0
libedit conda-forge/linux-64::libedit-3.1.20240808-pl5321h7949ede_0
libev conda-forge/linux-64::libev-4.33-hd590300_2
libiconv conda-forge/linux-64::libiconv-1.17-hd590300_2
liblief conda-forge/linux-64::liblief-0.14.1-h5888daf_2
libmamba conda-forge/linux-64::libmamba-1.5.12-h49b8a8d_0
libmambapy conda-forge/linux-64::libmambapy-1.5.12-py310h446c2ae_0
libnghttp2 conda-forge/linux-64::libnghttp2-1.64.0-h161d5f1_0
libsolv conda-forge/linux-64::libsolv-0.7.30-h3509ff9_0
libssh2 conda-forge/linux-64::libssh2-1.11.1-hf672d98_0
libstdcxx conda-forge/linux-64::libstdcxx-14.2.0-hc0a3c3a_1
libstdcxx-ng conda-forge/linux-64::libstdcxx-ng-14.2.0-h4852527_1
libxml2 conda-forge/linux-64::libxml2-2.13.5-h0d44e9d_1
lz4-c conda-forge/linux-64::lz4-c-1.10.0-h5888daf_1
lzo conda-forge/linux-64::lzo-2.10-hd590300_1001
markdown-it-py conda-forge/noarch::markdown-it-py-3.0.0-pyhd8ed1ab_1
markupsafe conda-forge/linux-64::markupsafe-3.0.2-py310h89163eb_1
mdurl conda-forge/noarch::mdurl-0.1.2-pyhd8ed1ab_1
menuinst conda-forge/linux-64::menuinst-2.2.0-py310hff52083_0
more-itertools conda-forge/noarch::more-itertools-10.5.0-pyhd8ed1ab_1
packaging conda-forge/noarch::packaging-24.2-pyhd8ed1ab_2
patch conda-forge/linux-64::patch-2.7.6-h7f98852_1002
patchelf conda-forge/linux-64::patchelf-0.17.2-h58526e2_0
pkginfo conda-forge/noarch::pkginfo-1.12.0-pyhd8ed1ab_1
pkgutil-resolve-n~ conda-forge/noarch::pkgutil-resolve-name-1.3.10-pyhd8ed1ab_2
platformdirs conda-forge/noarch::platformdirs-4.3.6-pyhd8ed1ab_1
pluggy conda-forge/noarch::pluggy-1.5.0-pyhd8ed1ab_1
prompt-toolkit conda-forge/noarch::prompt-toolkit-3.0.48-pyha770c72_1
prompt_toolkit conda-forge/noarch::prompt_toolkit-3.0.48-hd8ed1ab_1
psutil conda-forge/linux-64::psutil-6.1.1-py310ha75aee5_0
py-lief conda-forge/linux-64::py-lief-0.14.1-py310hf71b8c6_2
pybind11-abi conda-forge/noarch::pybind11-abi-4-hd8ed1ab_3
pycosat conda-forge/linux-64::pycosat-0.6.6-py310ha75aee5_2
pycparser conda-forge/noarch::pycparser-2.22-pyh29332c3_1
pygments conda-forge/noarch::pygments-2.19.1-pyhd8ed1ab_0
pysocks conda-forge/noarch::pysocks-1.7.1-pyha55dd90_7
python-libarchive~ conda-forge/linux-64::python-libarchive-c-5.1-py310hff52083_1
python_abi conda-forge/linux-64::python_abi-3.10-5_cp310
pytz conda-forge/noarch::pytz-2024.2-pyhd8ed1ab_1
pyyaml conda-forge/linux-64::pyyaml-6.0.2-py310ha75aee5_1
referencing conda-forge/noarch::referencing-0.35.1-pyhd8ed1ab_1
reproc conda-forge/linux-64::reproc-14.2.5.post0-hb9d3cd8_0
reproc-cpp conda-forge/linux-64::reproc-cpp-14.2.5.post0-h5888daf_0
requests conda-forge/noarch::requests-2.32.3-pyhd8ed1ab_1
rich conda-forge/noarch::rich-13.9.4-pyhd8ed1ab_1
ripgrep conda-forge/linux-64::ripgrep-14.1.1-h8fae777_0
rpds-py conda-forge/linux-64::rpds-py-0.22.3-py310h505e2c1_0
ruamel.yaml conda-forge/linux-64::ruamel.yaml-0.18.10-py310ha75aee5_0
ruamel.yaml.clib conda-forge/linux-64::ruamel.yaml.clib-0.2.8-py310ha75aee5_1
sniffio conda-forge/noarch::sniffio-1.3.1-pyhd8ed1ab_1
soupsieve conda-forge/noarch::soupsieve-2.5-pyhd8ed1ab_1
tomli conda-forge/noarch::tomli-2.2.1-pyhd8ed1ab_1
tqdm conda-forge/noarch::tqdm-4.67.1-pyhd8ed1ab_1
truststore conda-forge/noarch::truststore-0.10.0-pyhd8ed1ab_0
typing_extensions conda-forge/noarch::typing_extensions-4.12.2-pyha770c72_1
urllib3 conda-forge/noarch::urllib3-2.3.0-pyhd8ed1ab_0
watchgod conda-forge/noarch::watchgod-0.8.2-pyhd8ed1ab_1
wcwidth conda-forge/noarch::wcwidth-0.2.13-pyhd8ed1ab_1
yaml conda-forge/linux-64::yaml-0.2.5-h7f98852_2
yaml-cpp conda-forge/linux-64::yaml-cpp-0.8.0-h59595ed_0
zipp conda-forge/noarch::zipp-3.21.0-pyhd8ed1ab_1
zstandard conda-forge/linux-64::zstandard-0.23.0-py310ha39cb0e_1
zstd conda-forge/linux-64::zstd-1.5.6-ha6fb4c9_0

Downloading and Extracting Packages: ...working... done
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
INFO:conda_index.index.convert_cache:Migrate database
INFO:conda_index.index.convert_cache:CONVERT .cache
INFO:conda_index.index.convert_cache:Migrate database
INFO:conda_index.index:noarch cached 0 B from 0 packages at 0 B/second
INFO:conda_index.index:Subdir: noarch Gathering repodata
INFO:conda_index.index:noarch Writing pre-patch repodata
INFO:conda_index.index:noarch Applying patch instructions
INFO:conda_index.index:noarch Writing patched repodata
INFO:conda_index.index:noarch Building current_repodata subset
INFO:conda_index.index:noarch Writing current_repodata subset
INFO:conda_index.index:noarch Writing index HTML
INFO:conda_index.index:Completed noarch
INFO:conda_index.index:Channeldata subdir: noarch
Updating build index: /home/runner/work/CIL/CIL/recipe

Copying /home/runner/work/CIL/CIL to /usr/share/miniconda/envs/test/conda-bld/cil_1736332043613/work/
Adding in variants from internal_defaults
Adding in variants from /home/runner/work/CIL/CIL/recipe/conda_build_config.yaml
Adding in variants from config.variant
WARNING: No numpy version specified in conda_build_config.yaml. Falling back to default numpy value of 1.22
Attempting to finalize metadata for cil
warning libmamba Cache file "/home/runner/conda_pkgs_dir/cache/497deca9.json" was modified by another program
warning libmamba Cache file "/home/runner/conda_pkgs_dir/cache/09cdf8bf.json" was modified by another program
warning libmamba Cache file "/home/runner/conda_pkgs_dir/cache/47929eba.json" was modified by another program
warning libmamba Cache file "/home/runner/conda_pkgs_dir/cache/3e39a7aa.json" was modified by another program
warning libmamba Cache file "/home/runner/conda_pkgs_dir/cache/2ce54b42.json" was modified by another program
warning libmamba Cache file "/home/runner/conda_pkgs_dir/cache/4ea078d6.json" was modified by another program
warning libmamba Cache file "/home/runner/conda_pkgs_dir/cache/47929eba.json" was modified by another program
warning libmamba Cache file "/home/runner/conda_pkgs_dir/cache/3e39a7aa.json" was modified by another program
warning libmamba Cache file "/home/runner/conda_pkgs_dir/cache/2ce54b42.json" was modified by another program
warning libmamba Cache file "/home/runner/conda_pkgs_dir/cache/4ea078d6.json" was modified by another program
Reloading output folder: /home/runner/work/CIL/CIL/recipe
Reloading output folder: /home/runner/work/CIL/CIL/recipe
Reloading output folder: /home/runner/work/CIL/CIL/recipe
Traceback (most recent call last):
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/core/index.py", line 289, in data
return self._data
AttributeError: 'Index' object has no attribute '_data'. Did you mean: 'data'?

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/urllib3/response.py", line 754, in _error_catcher
yield
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/urllib3/response.py", line 900, in _raw_read
raise IncompleteRead(self._fp_bytes_read, self.length_remaining)
urllib3.exceptions.IncompleteRead: IncompleteRead(3208879 bytes read, 37901961 more expected)

The above exception was the direct cause of the following exception:

Traceback (most recent call last):
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/requests/models.py", line 820, in generate
yield from self.raw.stream(chunk_size, decode_content=True)
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/urllib3/response.py", line 1066, in stream
data = self.read(amt=amt, decode_content=decode_content)
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/urllib3/response.py", line 983, in read
data = self._raw_read(amt)
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/urllib3/response.py", line 878, in _raw_read
with self._error_catcher():
File "/usr/share/miniconda/envs/test/lib/python3.10/contextlib.py", line 153, in exit
self.gen.throw(typ, value, traceback)
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/urllib3/response.py", line 778, in _error_catcher
raise ProtocolError(arg, e) from e
urllib3.exceptions.ProtocolError: ('Connection broken: IncompleteRead(3208879 bytes read, 37901961 more expected)', IncompleteRead(3208879 bytes read, 37901961 more expected))

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/gateways/repodata/init.py", line 203, in conda_http_errors
yield
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/gateways/repodata/jlap/interface.py", line 87, in repodata_parsed
repodata_json_or_none = fetch.request_url_jlap_state(
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/gateways/repodata/jlap/fetch.py", line 309, in request_url_jlap_state
response = download_and_hash(
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/gateways/repodata/jlap/fetch.py", line 258, in download_and_hash
for block in response.iter_content(chunk_size=1 << 14):
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/requests/models.py", line 822, in generate
raise ChunkedEncodingError(e)
requests.exceptions.ChunkedEncodingError: ('Connection broken: IncompleteRead(3208879 bytes read, 37901961 more expected)', IncompleteRead(3208879 bytes read, 37901961 more expected))

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
File "/usr/share/miniconda/envs/test/bin/conda-mambabuild", line 10, in
sys.exit(main())
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/boa/cli/mambabuild.py", line 301, in main
call_conda_build(action, config)
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/boa/cli/mambabuild.py", line 273, in call_conda_build
result = api.build(
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda_build/api.py", line 250, in build
return build_tree(
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda_build/build.py", line 3638, in build_tree
packages_from_this = build(
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda_build/build.py", line 2308, in build
output_metas = expand_outputs([(m, need_source_download, need_reparse_in_env)])
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda_build/render.py", line 916, in expand_outputs
for output_dict, m in deepcopy(_m).get_output_metadata_set(
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda_build/metadata.py", line 2737, in get_output_metadata_set
conda_packages = finalize_outputs_pass(
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda_build/metadata.py", line 1095, in finalize_outputs_pass
fm = finalize_metadata(
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda_build/render.py", line 650, in finalize_metadata
build_unsat, host_unsat = add_upstream_pins(
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda_build/render.py", line 465, in add_upstream_pins
build_deps, build_unsat, extra_run_specs_from_build = _read_upstream_pin_files(
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda_build/render.py", line 453, in _read_upstream_pin_files
extra_run_specs = get_upstream_pins(m, precs, env)
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda_build/render.py", line 425, in get_upstream_pins
loc, dist = execute_download_actions(
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda_build/render.py", line 328, in execute_download_actions
index, _, _ = get_build_index(
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda_build/index.py", line 134, in get_build_index
expanded_channels = {rec.channel for rec in cached_index}
File "/usr/share/miniconda/envs/test/lib/python3.10/collections/init.py", line 1115, in iter
return iter(self.data)
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/core/index.py", line 291, in data
self._realize()
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/core/index.py", line 354, in _realize
self._data.update((prec, prec) for prec in subdir_data.iter_records())
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/core/subdir_data.py", line 284, in iter_records
self.load()
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/core/subdir_data.py", line 255, in load
_internal_state = self._load()
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/core/subdir_data.py", line 301, in _load
repodata, state = fetcher.fetch_latest_parsed()
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/gateways/repodata/init.py", line 730, in fetch_latest_parsed
parsed, state = self.fetch_latest()
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/gateways/repodata/init.py", line 847, in fetch_latest
raw_repodata = repo.repodata_parsed(cache.state) # type: ignore
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/gateways/repodata/jlap/interface.py", line 86, in repodata_parsed
with conda_http_errors(self._url, self._repodata_fn):
File "/usr/share/miniconda/envs/test/lib/python3.10/contextlib.py", line 153, in exit
self.gen.throw(typ, value, traceback)
File "/usr/share/miniconda/envs/test/lib/python3.10/site-packages/conda/gateways/repodata/init.py", line 346, in conda_http_errors
raise CondaHTTPError(
conda.exceptions.CondaHTTPError: HTTP 000 CONNECTION FAILED for url https://conda.anaconda.org/conda-forge/linux-64/repodata.json
Elapsed: -

An HTTP error occurred when trying to retrieve this URL.
HTTP errors are often intermittent, and a simple retry will get you on your way.
'https//conda.anaconda.org/conda-forge/linux-64'

[MargaretDuff]

From @lauramurgatroyd

Not sure if relevant we get many warnings:

"The ETag (Entity Tag) HTTP response header is a mechanism used by web servers and browsers to validate cached components"

[MargaretDuff]

A different failure:

Run conda-incubator/setup-miniconda@v3 Gathering Inputs... Creating bootstrap condarc file in /home/runner/.condarc... Ensuring installer... Setup environment variables... Parsing environment... Applying initial configuration... Initializing conda shell integration... Adding tools to 'base' env... Ensuring environment... Updating 'test' env from conda create (simple)... /usr/share/miniconda/condabin/mamba create --name test python=3.11 Warning: warning libmamba Could not parse mod/etag header

warning libmamba Could not parse mod/etag header
Warning: warning libmamba Could not parse mod/etag header

warning libmamba Could not parse mod/etag header
Warning: warning libmamba Could not parse mod/etag header

warning libmamba Could not parse mod/etag header
Warning: warning libmamba Could not parse mod/etag header

warning libmamba Could not parse mod/etag header
Warning: warning libmamba Could not parse mod/etag header

warning libmamba Could not parse mod/etag header
Warning: warning libmamba Could not parse mod/etag header

warning libmamba Could not parse mod/etag header
Warning: warning libmamba Could not parse mod/etag header

warning libmamba Could not parse mod/etag header
Warning: warning libmamba Could not parse mod/etag header

warning libmamba Could not parse mod/etag header
Warning: warning libmamba Could not parse mod/etag header

warning libmamba Could not parse mod/etag header
Warning: warning libmamba Could not parse mod/etag header

warning libmamba Could not parse mod/etag header
Transaction

Prefix: /usr/share/miniconda/envs/test

Updating specs:

 - python=3.11


Package                Version  Build               Channel           Size

──────────────────────────────────────────────────────────────────────────────
Install:
──────────────────────────────────────────────────────────────────────────────

+ ld_impl_linux-64        2.43  h712a8e2_2          conda-forge      669kB
+ _libgcc_mutex            0.1  conda_forge         conda-forge     Cached
+ ca-certificates   2024.12.14  hbcca054_0          conda-forge     Cached
+ libgomp               14.2.0  h77fa898_1          conda-forge     Cached
+ _openmp_mutex            4.5  2_gnu               conda-forge     Cached
+ libgcc                14.2.0  h77fa898_1          conda-forge     Cached
+ openssl                3.4.0  h7b32b05_1          conda-forge     Cached
+ libzlib                1.3.1  hb9d3cd8_2          conda-forge       61kB
+ liblzma                5.6.3  hb9d3cd8_1          conda-forge      111kB
+ libgcc-ng             14.2.0  h69a702a_1          conda-forge     Cached
+ libexpat               2.6.4  h5888daf_0          conda-forge     Cached
+ libsqlite             3.47.2  hee588c1_0          conda-forge      874kB
+ tk                    8.6.[13](https://github.com/TomographicImaging/CIL/actions/runs/12706337788/job/35419106652#step:3:14)  noxft_h4845f30_101  conda-forge        3MB
+ ncurses                  6.5  he02047a_1          conda-forge      889kB
+ libxcrypt             4.4.36  hd590300_1          conda-forge     Cached
+ libffi                 3.4.2  h7f98852_5          conda-forge       58kB
+ bzip2                  1.0.8  h4bc722e_7          conda-forge      253kB
+ libuuid               2.38.1  h0b41bf4_0          conda-forge     Cached
+ libnsl                 2.0.1  hd590300_0          conda-forge     Cached
+ readline                 8.2  h8228510_1          conda-forge      281kB
+ tzdata                 2024b  hc8b5060_0          conda-forge      122kB
+ python               3.11.11  h9e4cc4f_1_cpython  conda-forge       31MB
+ wheel                 0.45.1  pyhd8ed1ab_1        conda-forge       63kB
+ setuptools            75.7.0  pyhff2d567_0        conda-forge      774kB
+ pip                   24.3.1  pyh8b19718_2        conda-forge        1MB

Summary:

Install: 25 packages

Total download: 39MB

──────────────────────────────────────────────────────────────────────────────

ld_impl_linux-64-2.43-h712a8e2_2.conda tarball has incorrect checksum
Warning: error libmamba File not valid: SHA256 sum doesn't match expectation "/home/runner/conda_pkgs_dir/ld_impl_linux-64-2.43-h712a8e2_2.conda"
Expected: 7c91cea91b13f4314d125d1bedb9d03a29ebbd5080ccdea70260363424646dbe
Actual: e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855

warning libmamba '/home/runner/conda_pkgs_dir/ld_impl_linux-64-2.43-h712a8e2_2.conda' validation failed

error libmamba File not valid: SHA256 sum doesn't match expectation "/home/runner/conda_pkgs_dir/ld_impl_linux-64-2.43-h712a8e2_2.conda"
Expected: 7c91cea91b13f4314d125d1bedb9d03a29ebbd5080ccdea70260363424646dbe
Actual: e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855

warning libmamba '/home/runner/conda_pkgs_dir/ld_impl_linux-64-2.43-h712a8e2_2.conda' validation failed
Warning: Found incorrect download: ld_impl_linux-64. Aborting

Found incorrect download: ld_impl_linux-64. Aborting
Warning:

>>>>>>>>>>>>>>>>>>>>>> ERROR REPORT <<<<<<<<<<<<<<<<<<<<<<

  Traceback (most recent call last):
    File "/usr/share/miniconda/lib/python3.12/site-packages/conda/exception_handler.py", line [18](https://github.com/TomographicImaging/CIL/actions/runs/12706337788/job/35419106652#step:3:22), in __call__
      return func(*args, **kwargs)
             ^^^^^^^^^^^^^^^^^^^^^
    File "/usr/share/miniconda/lib/python3.12/site-packages/mamba/mamba.py", line 960, in exception_converter
      raise e
    File "/usr/share/miniconda/lib/python3.12/site-packages/mamba/mamba.py", line 953, in exception_converter
      exit_code = _wrapped_main(*args, **kwargs)
                  ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
    File "/usr/share/miniconda/lib/python3.12/site-packages/mamba/mamba.py", line 899, in _wrapped_main
      result = do_call(parsed_args, p)
               ^^^^^^^^^^^^^^^^^^^^^^^
    File "/usr/share/miniconda/lib/python3.12/site-packages/mamba/mamba.py", line 768, in do_call
      exit_code = create(args, parser)
                  ^^^^^^^^^^^^^^^^^^^^
    File "/usr/share/miniconda/lib/python3.12/site-packages/mamba/mamba.py", line 603, in create
      return install(args, parser, "create")
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
    File "/usr/share/miniconda/lib/python3.12/site-packages/mamba/mamba.py", line 559, in install
      transaction.fetch_extract_packages()
  RuntimeError: Found incorrect download: ld_impl_linux-64. Aborting

$ /usr/share/miniconda/condabin/mamba create --name test python=3.11

environment variables:
               CIO_TEST=<not set>
                  CONDA=/usr/share/miniconda
             CONDA_ROOT=/usr/share/miniconda
         CURL_CA_BUNDLE=<not set>
    DEPLOYMENT_BASEPATH=/opt/runner
      GITHUB_EVENT_PATH=/home/runner/work/_temp/_github_workflow/event.json
            GITHUB_PATH=/home/runner/work/_temp/_runner_file_commands/add_path_55e2746b-88c3-
                        41b9-b3bc-0eeeee85daf5
             LD_PRELOAD=<not set>
                   PATH=/usr/share/miniconda/condabin:/snap/bin:/home/runner/.local/bin:/opt/p
                        ipx_bin:/home/runner/.cargo/bin:/home/runner/.config/composer/vendor/b
                        in:/usr/local/.ghcup/bin:/home/runner/.dotnet/tools:/usr/local/sbin:/u
                        sr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games
                        :/snap/bin
     REQUESTS_CA_BUNDLE=<not set>
      SELENIUM_JAR_PATH=/usr/share/java/selenium-server.jar
          SSL_CERT_FILE=<not set>
             SWIFT_PATH=/usr/share/swift/usr/bin

   active environment : None
     user config file : /home/runner/.condarc

populated config files : /usr/share/miniconda/.condarc
/home/runner/.condarc
conda version : 24.11.1
conda-build version : not installed
python version : 3.12.2.final.0
solver : libmamba (default)
virtual packages : __archspec=1=zen2
__conda=24.11.1=0
__glibc=2.35=0
__linux=6.5.0=0
__unix=0=0
base environment : /usr/share/miniconda (writable)
conda av data dir : /usr/share/miniconda/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://repo.anaconda.com/pkgs/main/linux-64
https://repo.anaconda.com/pkgs/main/noarch
https://repo.anaconda.com/pkgs/r/linux-64
https://repo.anaconda.com/pkgs/r/noarch
package cache : /home/runner/conda_pkgs_dir
envs directories : /usr/share/miniconda/envs
/home/runner/.conda/envs
platform : linux-64
user-agent : conda/24.11.1 requests/2.32.3 CPython/3.12.2 Linux/6.5.0-1025-azure ubuntu/22.04.5 glibc/2.35 solver/libmamba conda-libmamba-solver/24.9.0 libmambapy/1.5.12
UID:GI

>>>>>>>>>>>>>>>>>>>>>> ERROR REPORT <<<<<<<<<<<<<<<<<<<<<<

  Traceback (most recent call last):
    File "/usr/share/miniconda/lib/python3.12/site-packages/conda/exception_handler.py", line 18, in __call__
      return func(*args, **kwargs)
             ^^^^^^^^^^^^^^^^^^^^^
    File "/usr/share/miniconda/lib/python3.12/site-packages/mamba/mamba.py", line 960, in exception_converter
      raise e
    File "/usr/share/miniconda/lib/python3.12/site-packages/mamba/mamba.py", line 953, in exception_converter
      exit_code = _wrapped_main(*args, **kwargs)
                  ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
    File "/usr/share/miniconda/lib/python3.12/site-packages/mamba/mamba.py", line 899, in _wrapped_main
      result = do_call(parsed_args, p)
               ^^^^^^^^^^^^^^^^^^^^^^^
    File "/usr/share/miniconda/lib/python3.12/site-packages/mamba/mamba.py", line 768, in do_call
      exit_code = create(args, parser)
                  ^^^^^^^^^^^^^^^^^^^^
    File "/usr/share/miniconda/lib/python3.12/site-packages/mamba/mamba.py", line 603, in create
      return install(args, parser, "create")
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
    File "/usr/share/miniconda/lib/python3.12/site-packages/mamba/mamba.py", line 559, in install
      transaction.fetch_extract_packages()
  RuntimeError: Found incorrect download: ld_impl_linux-64. Aborting

$ /usr/share/miniconda/condabin/mamba create --name test python=3.11

environment variables:
               CIO_TEST=<not set>
                  CONDA=/usr/share/miniconda
             CONDA_ROOT=/usr/share/miniconda
         CURL_CA_BUNDLE=<not set>
    DEPLOYMENT_BASEPATH=/opt/runner
      GITHUB_EVENT_PATH=/home/runner/work/_temp/_github_workflow/event.json
            GITHUB_PATH=/home/runner/work/_temp/_runner_file_commands/add_path_55e2746b-88c3-
                        41b9-b3bc-0eeeee85daf5
             LD_PRELOAD=<not set>
                   PATH=/usr/share/miniconda/condabin:/snap/bin:/home/runner/.local/bin:/opt/p
                        ipx_bin:/home/runner/.cargo/bin:/home/runner/.config/composer/vendor/b
                        in:/usr/local/.ghcup/bin:/home/runner/.dotnet/tools:/usr/local/sbin:/u
                        sr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games
                        :/snap/bin
     REQUESTS_CA_BUNDLE=<not set>
      SELENIUM_JAR_PATH=/usr/share/java/selenium-server.jar
          SSL_CERT_FILE=<not set>
             SWIFT_PATH=/usr/share/swift/usr/bin

   active environment : None
     user config file : /home/runner/.condarc

populated config files : /usr/share/miniconda/.condarc
/home/runner/.condarc
conda version : 24.11.1
conda-build version : not installed
python version : 3.12.2.final.0
solver : libmamba (default)
virtual packages : __archspec=1=zen2
__conda=24.11.1=0
__glibc=2.35=0
__linux=6.5.0=0
__unix=0=0
base environment : /usr/share/miniconda (writable)
conda av data dir : /usr/share/miniconda/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://repo.anaconda.com/pkgs/main/linux-64
https://repo.anaconda.com/pkgs/main/noarch
https://repo.anaconda.com/pkgs/r/linux-64
https://repo.anaconda.com/pkgs/r/noarch
package cache : /home/runner/conda_pkgs_dir
envs directories : /usr/share/miniconda/envs
/home/runner/.conda/envs
platform : linux-64
user-agent : conda/24.11.1 requests/2.32.3 CPython/3.12.2 Linux/6.5.0-1025-azure ubuntu/22.04.5 glibc/2.35 solver/libmamba conda-libmamba-solver/24.9.0 libmambapy/1.5.12
UID:GID : 1001:128
netrc file : None
offline mode : False

An unexpected error has occurred. Conda has prepared the above report.
If you suspect this error is being caused by a malfunctioning plugin,
consider using the --no-plugins option to turn off plugins.

Example: conda --no-plugins install

Alternatively, you can set the CONDA_NO_PLUGINS environment variable on
the command line to run the command without plugins enabled.

Example: CONDA_NO_PLUGINS=true conda install