| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-11-20 12:03 -0500 (Thu, 20 Nov 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4615 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.2 Patched (2025-11-05 r88990) -- "[Not] Part in a Rumble" | 4610 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble" | 4598 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4668 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 984/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| HiCool 1.10.0 (landing page) Jacques Serizay
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| merida1 | macOS 12.7.6 Monterey / x86_64 | OK | ERROR | skipped | skipped | |||||||||
| kjohnson1 | macOS 13.7.5 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the HiCool package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/HiCool.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: HiCool |
| Version: 1.10.0 |
| Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 HiCool |
| StartedAt: 2025-11-17 21:28:40 -0500 (Mon, 17 Nov 2025) |
| EndedAt: 2025-11-17 21:31:22 -0500 (Mon, 17 Nov 2025) |
| EllapsedTime: 162.1 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 HiCool
###
##############################################################################
##############################################################################
* checking for file ‘HiCool/DESCRIPTION’ ... OK
* preparing ‘HiCool’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘HiCool.Rmd’ using rmarkdown
Retrieving notices: ...working... /home/biocbuild/.cache/R/biocconda/24.11.3-0/lib/python3.12/site-packages/urllib3/connectionpool.py:1097: InsecureRequestWarning: Unverified HTTPS request is being made to host 'anaconda.mgb.org'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings
warnings.warn(
/home/biocbuild/.cache/R/biocconda/24.11.3-0/lib/python3.12/site-packages/urllib3/connectionpool.py:1097: InsecureRequestWarning: Unverified HTTPS request is being made to host 'anaconda.mgb.org'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings
warnings.warn(
done
Channels:
- conda-forge
- bioconda
Platform: linux-64
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /home/biocbuild/.cache/R/HiCool/env1/0.1.0
added / updated specs:
- bowtie2==2.5.4
- chromosight==1.6.3
- cooler==0.10.3
- hicstuff==3.2.4
- numpy==1.26.4
- pairtools==1.1.3
- python==3.12.11
- samtools==1.22.1
The following packages will be downloaded:
package | build
---------------------------|-----------------
asciitree-0.3.3 | py_2 6 KB conda-forge
attrs-25.4.0 | pyh71513ae_0 59 KB conda-forge
aws-c-auth-0.9.1 | h7ca4310_7 120 KB conda-forge
aws-c-cal-0.9.10 | h346e085_1 54 KB conda-forge
aws-c-common-0.12.5 | hb03c661_1 233 KB conda-forge
aws-c-compression-0.3.1 | h7e655bb_8 22 KB conda-forge
aws-c-event-stream-0.5.6 | h3cb25bf_6 58 KB conda-forge
aws-c-http-0.10.7 | hc5c8343_4 219 KB conda-forge
aws-c-io-0.23.3 | ha76f1cc_3 177 KB conda-forge
aws-c-mqtt-0.13.3 | h3a25ec9_10 211 KB conda-forge
aws-c-s3-0.10.1 | hcb69869_2 146 KB conda-forge
aws-c-sdkutils-0.2.4 | h7e655bb_3 58 KB conda-forge
aws-checksums-0.2.7 | h7e655bb_4 75 KB conda-forge
aws-crt-cpp-0.35.2 | h2ceb62e_4 398 KB conda-forge
aws-sdk-cpp-1.11.606 | hd6e39bc_7 3.3 MB conda-forge
azure-core-cpp-1.16.1 | h3a458e0_0 340 KB conda-forge
azure-identity-cpp-1.13.2 | h3a5f585_1 244 KB conda-forge
azure-storage-blobs-cpp-12.15.0| h2a74896_1 563 KB conda-forge
azure-storage-common-cpp-12.11.0| h3d7a050_1 146 KB conda-forge
azure-storage-files-datalake-cpp-12.13.0| hf38f1be_1 292 KB conda-forge
bioframe-0.8.0 | pyhdfd78af_0 133 KB bioconda
biopython-1.86 | py312h4c3975b_0 3.1 MB conda-forge
bokeh-3.8.1 | pyhd8ed1ab_0 4.8 MB conda-forge
bowtie2-2.5.4 | he96a11b_6 14.3 MB bioconda
brotli-1.2.0 | h41a2e66_0 19 KB conda-forge
brotli-bin-1.2.0 | hf2c8021_0 21 KB conda-forge
brotli-python-1.2.0 | py312h67db365_0 359 KB conda-forge
bzip2-1.0.8 | hda65f42_8 254 KB conda-forge
cached-property-1.5.2 | hd8ed1ab_1 4 KB conda-forge
cached_property-1.5.2 | pyha770c72_1 11 KB conda-forge
certifi-2025.11.12 | pyhd8ed1ab_0 153 KB conda-forge
cffi-2.0.0 | py312h35888ee_0 290 KB conda-forge
charset-normalizer-3.4.4 | pyhd8ed1ab_0 50 KB conda-forge
chromosight-1.6.3 | pyhdfd78af_0 124 KB bioconda
click-8.3.1 | pyh707e725_0 90 KB conda-forge
cloudpickle-3.1.2 | pyhd8ed1ab_0 26 KB conda-forge
contourpy-1.3.3 | py312hd9148b4_3 288 KB conda-forge
cooler-0.10.3 | pyhdfd78af_0 86 KB bioconda
coreutils-9.5 | hd590300_0 2.9 MB conda-forge
cycler-0.12.1 | pyhd8ed1ab_1 13 KB conda-forge
cytoolz-1.1.0 | py312h4c3975b_1 579 KB conda-forge
dask-2025.11.0 | pyhcf101f3_0 11 KB conda-forge
dask-core-2025.11.0 | pyhcf101f3_0 1.0 MB conda-forge
dill-0.4.0 | pyhd8ed1ab_0 89 KB conda-forge
distributed-2025.11.0 | pyhcf101f3_0 825 KB conda-forge
docopt-0.6.2 | pyhd8ed1ab_2 18 KB conda-forge
fonttools-4.60.1 | py312h8a5da7c_0 2.8 MB conda-forge
freetype-2.14.1 | ha770c72_0 169 KB conda-forge
fsspec-2025.10.0 | pyhd8ed1ab_0 143 KB conda-forge
gflags-2.2.2 | h5888daf_1005 117 KB conda-forge
glog-0.7.1 | hbabe93e_0 140 KB conda-forge
h2-4.3.0 | pyhcf101f3_0 94 KB conda-forge
h5py-3.15.1 |nompi_py312ha4f8f14_100 1.3 MB conda-forge
hicstuff-3.2.4 | pyhdfd78af_0 90 KB bioconda
hpack-4.1.0 | pyhd8ed1ab_0 30 KB conda-forge
htslib-1.22.1 | h566b1c6_0 3.1 MB bioconda
hyperframe-6.1.0 | pyhd8ed1ab_0 17 KB conda-forge
icu-75.1 | he02047a_0 11.6 MB conda-forge
idna-3.11 | pyhd8ed1ab_0 50 KB conda-forge
importlib-metadata-8.7.0 | pyhe01879c_1 34 KB conda-forge
jinja2-3.1.6 | pyhd8ed1ab_0 110 KB conda-forge
joblib-1.5.2 | pyhd8ed1ab_0 219 KB conda-forge
jsonschema-4.25.1 | pyhe01879c_0 80 KB conda-forge
jsonschema-specifications-2025.9.1| pyhcf101f3_0 19 KB conda-forge
k8-1.2 | he8db53b_6 7.2 MB bioconda
kernel-headers_linux-64-6.12.0| he073ed8_2 1.5 MB conda-forge
kiwisolver-1.4.9 | py312h0a2e395_2 76 KB conda-forge
lcms2-2.17 | h717163a_0 242 KB conda-forge
ld_impl_linux-64-2.45 | h1aa0949_0 736 KB conda-forge
lerc-4.0.0 | h0aef613_1 258 KB conda-forge
libabseil-20250512.1 | cxx17_hba17884_0 1.2 MB conda-forge
libarrow-22.0.0 | h773bc41_4_cpu 6.0 MB conda-forge
libarrow-acero-22.0.0 | h635bf11_4_cpu 566 KB conda-forge
libarrow-compute-22.0.0 | h8c2c5c3_4_cpu 2.8 MB conda-forge
libarrow-dataset-22.0.0 | h635bf11_4_cpu 565 KB conda-forge
libarrow-substrait-22.0.0 | h3f74fd7_4_cpu 470 KB conda-forge
libblas-3.11.0 |0_h4a7cf45_openblas 18 KB conda-forge
libbrotlicommon-1.2.0 | h09219d5_0 78 KB conda-forge
libbrotlidec-1.2.0 | hd53d788_0 34 KB conda-forge
libbrotlienc-1.2.0 | h02bd7ab_0 291 KB conda-forge
libcblas-3.11.0 |0_h0358290_openblas 18 KB conda-forge
libcrc32c-1.1.2 | h9c3ff4c_0 20 KB conda-forge
libdeflate-1.25 | h17f619e_0 72 KB conda-forge
libevent-2.1.12 | hf998b51_1 417 KB conda-forge
libexpat-2.7.1 | hecca717_0 73 KB conda-forge
libffi-3.4.6 | h2dba641_1 56 KB conda-forge
libfreetype-2.14.1 | ha770c72_0 7 KB conda-forge
libfreetype6-2.14.1 | h73754d4_0 378 KB conda-forge
libgoogle-cloud-2.39.0 | hdb79228_0 1.2 MB conda-forge
libgoogle-cloud-storage-2.39.0| hdbdcf42_0 785 KB conda-forge
libgrpc-1.73.1 | h3288cfb_1 8.0 MB conda-forge
libiconv-1.18 | h3b78370_2 772 KB conda-forge
libjpeg-turbo-3.1.2 | hb03c661_0 619 KB conda-forge
liblapack-3.11.0 |0_h47877c9_openblas 18 KB conda-forge
liblzma-5.8.1 | hb9d3cd8_2 110 KB conda-forge
libnsl-2.0.1 | hb9d3cd8_1 33 KB conda-forge
libopenblas-0.3.30 |pthreads_h94d23a6_4 5.7 MB conda-forge
libopentelemetry-cpp-1.21.0| hb9b0907_1 865 KB conda-forge
libopentelemetry-cpp-headers-1.21.0| ha770c72_1 355 KB conda-forge
libparquet-22.0.0 | h7376487_4_cpu 1.3 MB conda-forge
libpng-1.6.50 | h421ea60_1 310 KB conda-forge
libprotobuf-6.31.1 | h49aed37_2 4.4 MB conda-forge
libre2-11-2025.11.05 | h7b12aa8_0 206 KB conda-forge
libsqlite-3.51.0 | hee844dc_0 923 KB conda-forge
libthrift-0.22.0 | h454ac66_1 414 KB conda-forge
libtiff-4.7.1 | h9d88235_1 425 KB conda-forge
libutf8proc-2.11.1 | hfe17d71_0 84 KB conda-forge
libuuid-2.41.2 | he9a06e4_0 36 KB conda-forge
libwebp-base-1.6.0 | hd42ef1d_0 419 KB conda-forge
libxcb-1.17.0 | h8a09558_0 387 KB conda-forge
libxcrypt-4.4.36 | hd590300_1 98 KB conda-forge
libxml2-2.15.1 | h26afc86_0 44 KB conda-forge
libxml2-16-2.15.1 | ha9997c6_0 543 KB conda-forge
locket-1.0.0 | pyhd8ed1ab_0 8 KB conda-forge
lz4-4.4.5 | py312h3d67a73_0 43 KB conda-forge
lz4-c-1.10.0 | h5888daf_1 163 KB conda-forge
markupsafe-3.0.3 | py312h8a5da7c_0 25 KB conda-forge
matplotlib-base-3.10.8 | py312he3d6523_0 8.1 MB conda-forge
minimap2-2.30 | h577a1d6_0 1.3 MB bioconda
msgpack-python-1.1.2 | py312hd9148b4_1 100 KB conda-forge
multiprocess-0.70.18 | py312h5253ce2_2 360 KB conda-forge
munkres-1.1.4 | pyhd8ed1ab_1 15 KB conda-forge
narwhals-2.12.0 | pyhcf101f3_0 262 KB conda-forge
nlohmann_json-3.12.0 | h54a6638_1 133 KB conda-forge
numpy-1.26.4 | py312heda63a1_0 7.1 MB conda-forge
openjpeg-2.5.4 | h55fea9a_0 347 KB conda-forge
orc-2.2.1 | hd747db4_0 1.3 MB conda-forge
packaging-25.0 | pyh29332c3_1 61 KB conda-forge
pairix-0.3.9 | py312h4711d71_0 101 KB bioconda
pairtools-1.1.3 | py312h5219090_0 357 KB bioconda
pandas-2.3.3 | py312hf79963d_1 14.4 MB conda-forge
partd-1.4.2 | pyhd8ed1ab_0 20 KB conda-forge
pbgzip-2016.08.04 | hb1d24b7_6 93 KB bioconda
perl-5.32.1 | 7_hd590300_perl5 12.7 MB conda-forge
pillow-12.0.0 | py312h0889fd4_0 1004 KB conda-forge
pip-25.3 | pyh8b19718_0 1.1 MB conda-forge
prometheus-cpp-1.3.0 | ha5d0236_0 195 KB conda-forge
psutil-7.1.3 | py312h5253ce2_0 483 KB conda-forge
pthread-stubs-0.4 | hb9d3cd8_1002 8 KB conda-forge
pyarrow-22.0.0 | py312h7900ff3_0 26 KB conda-forge
pyarrow-core-22.0.0 |py312hc195796_0_cpu 5.1 MB conda-forge
pycparser-2.22 | pyh29332c3_1 108 KB conda-forge
pyfaidx-0.9.0.3 | pyhdfd78af_0 35 KB bioconda
pyfastx-2.2.0 | py312h4711d71_1 669 KB bioconda
pyparsing-3.2.5 | pyhcf101f3_0 102 KB conda-forge
pysam-0.23.3 | py312h47d5410_1 4.7 MB bioconda
pysocks-1.7.1 | pyha55dd90_7 21 KB conda-forge
python-3.12.11 |h9e4cc4f_0_cpython 30.0 MB conda-forge
python-dateutil-2.9.0.post0| pyhe01879c_2 228 KB conda-forge
python-tzdata-2025.2 | pyhd8ed1ab_0 141 KB conda-forge
python_abi-3.12 | 8_cp312 7 KB conda-forge
pytz-2025.2 | pyhd8ed1ab_0 185 KB conda-forge
pyvcf3-1.0.4 | py312h0fa9677_0 1.1 MB bioconda
pyyaml-6.0.3 | py312h8a5da7c_0 200 KB conda-forge
qhull-2020.2 | h434a139_5 540 KB conda-forge
re2-2025.11.05 | h5301d42_0 27 KB conda-forge
readline-8.2 | h8c095d6_2 276 KB conda-forge
referencing-0.37.0 | pyhcf101f3_0 51 KB conda-forge
requests-2.32.5 | pyhd8ed1ab_0 58 KB conda-forge
rpds-py-0.29.0 | py312h868fb18_0 376 KB conda-forge
s2n-1.6.0 | h8399546_1 384 KB conda-forge
samtools-1.22.1 | h96c455f_0 488 KB bioconda
scikit-learn-1.7.2 | py312h4f0b9e3_0 9.2 MB conda-forge
scipy-1.16.3 | py312h7a1785b_1 16.0 MB conda-forge
setuptools-80.9.0 | pyhff2d567_0 731 KB conda-forge
simplejson-3.20.2 | py312h4c3975b_1 130 KB conda-forge
six-1.17.0 | pyhe01879c_1 18 KB conda-forge
snappy-1.2.2 | h03e3b7b_1 45 KB conda-forge
sortedcontainers-2.4.0 | pyhd8ed1ab_1 28 KB conda-forge
sysroot_linux-64-2.39 | hc4b9eeb_2 40.0 MB conda-forge
tblib-3.2.2 | pyhcf101f3_0 19 KB conda-forge
threadpoolctl-3.6.0 | pyhecae5ae_0 23 KB conda-forge
tk-8.6.13 |noxft_ha0e22de_103 3.1 MB conda-forge
toolz-1.1.0 | pyhd8ed1ab_1 53 KB conda-forge
tornado-6.5.2 | py312h4c3975b_2 831 KB conda-forge
typing_extensions-4.15.0 | pyhcf101f3_0 50 KB conda-forge
tzdata-2025b | h78e105d_0 120 KB conda-forge
unicodedata2-17.0.0 | py312h4c3975b_1 399 KB conda-forge
urllib3-2.5.0 | pyhd8ed1ab_0 99 KB conda-forge
wheel-0.45.1 | pyhd8ed1ab_1 61 KB conda-forge
xorg-libxau-1.0.12 | hb03c661_1 15 KB conda-forge
xorg-libxdmcp-1.1.5 | hb03c661_1 20 KB conda-forge
xyzservices-2025.10.0 | pyhd8ed1ab_0 49 KB conda-forge
yaml-0.2.5 | h280c20c_3 83 KB conda-forge
zict-3.0.0 | pyhd8ed1ab_1 35 KB conda-forge
zipp-3.23.0 | pyhd8ed1ab_0 22 KB conda-forge
zlib-1.3.1 | hb9d3cd8_2 90 KB conda-forge
zlib-ng-2.2.5 | hde8ca8f_0 108 KB conda-forge
zstandard-0.25.0 | py312h5253ce2_1 456 KB conda-forge
------------------------------------------------------------
Total: 273.1 MB
The following NEW packages will be INSTALLED:
_libgcc_mutex conda-forge/linux-64::_libgcc_mutex-0.1-conda_forge
_openmp_mutex conda-forge/linux-64::_openmp_mutex-4.5-2_gnu
asciitree conda-forge/noarch::asciitree-0.3.3-py_2
attrs conda-forge/noarch::attrs-25.4.0-pyh71513ae_0
aws-c-auth conda-forge/linux-64::aws-c-auth-0.9.1-h7ca4310_7
aws-c-cal conda-forge/linux-64::aws-c-cal-0.9.10-h346e085_1
aws-c-common conda-forge/linux-64::aws-c-common-0.12.5-hb03c661_1
aws-c-compression conda-forge/linux-64::aws-c-compression-0.3.1-h7e655bb_8
aws-c-event-stream conda-forge/linux-64::aws-c-event-stream-0.5.6-h3cb25bf_6
aws-c-http conda-forge/linux-64::aws-c-http-0.10.7-hc5c8343_4
aws-c-io conda-forge/linux-64::aws-c-io-0.23.3-ha76f1cc_3
aws-c-mqtt conda-forge/linux-64::aws-c-mqtt-0.13.3-h3a25ec9_10
aws-c-s3 conda-forge/linux-64::aws-c-s3-0.10.1-hcb69869_2
aws-c-sdkutils conda-forge/linux-64::aws-c-sdkutils-0.2.4-h7e655bb_3
aws-checksums conda-forge/linux-64::aws-checksums-0.2.7-h7e655bb_4
aws-crt-cpp conda-forge/linux-64::aws-crt-cpp-0.35.2-h2ceb62e_4
aws-sdk-cpp conda-forge/linux-64::aws-sdk-cpp-1.11.606-hd6e39bc_7
azure-core-cpp conda-forge/linux-64::azure-core-cpp-1.16.1-h3a458e0_0
azure-identity-cpp conda-forge/linux-64::azure-identity-cpp-1.13.2-h3a5f585_1
azure-storage-blo~ conda-forge/linux-64::azure-storage-blobs-cpp-12.15.0-h2a74896_1
azure-storage-com~ conda-forge/linux-64::azure-storage-common-cpp-12.11.0-h3d7a050_1
azure-storage-fil~ conda-forge/linux-64::azure-storage-files-datalake-cpp-12.13.0-hf38f1be_1
bioframe bioconda/noarch::bioframe-0.8.0-pyhdfd78af_0
biopython conda-forge/linux-64::biopython-1.86-py312h4c3975b_0
bokeh conda-forge/noarch::bokeh-3.8.1-pyhd8ed1ab_0
bowtie2 bioconda/linux-64::bowtie2-2.5.4-he96a11b_6
brotli conda-forge/linux-64::brotli-1.2.0-h41a2e66_0
brotli-bin conda-forge/linux-64::brotli-bin-1.2.0-hf2c8021_0
brotli-python conda-forge/linux-64::brotli-python-1.2.0-py312h67db365_0
bzip2 conda-forge/linux-64::bzip2-1.0.8-hda65f42_8
c-ares conda-forge/linux-64::c-ares-1.34.5-hb9d3cd8_0
ca-certificates conda-forge/noarch::ca-certificates-2025.11.12-hbd8a1cb_0
cached-property conda-forge/noarch::cached-property-1.5.2-hd8ed1ab_1
cached_property conda-forge/noarch::cached_property-1.5.2-pyha770c72_1
certifi conda-forge/noarch::certifi-2025.11.12-pyhd8ed1ab_0
cffi conda-forge/linux-64::cffi-2.0.0-py312h35888ee_0
charset-normalizer conda-forge/noarch::charset-normalizer-3.4.4-pyhd8ed1ab_0
chromosight bioconda/noarch::chromosight-1.6.3-pyhdfd78af_0
click conda-forge/noarch::click-8.3.1-pyh707e725_0
cloudpickle conda-forge/noarch::cloudpickle-3.1.2-pyhd8ed1ab_0
contourpy conda-forge/linux-64::contourpy-1.3.3-py312hd9148b4_3
cooler bioconda/noarch::cooler-0.10.3-pyhdfd78af_0
coreutils conda-forge/linux-64::coreutils-9.5-hd590300_0
cycler conda-forge/noarch::cycler-0.12.1-pyhd8ed1ab_1
cytoolz conda-forge/linux-64::cytoolz-1.1.0-py312h4c3975b_1
dask conda-forge/noarch::dask-2025.11.0-pyhcf101f3_0
dask-core conda-forge/noarch::dask-core-2025.11.0-pyhcf101f3_0
dill conda-forge/noarch::dill-0.4.0-pyhd8ed1ab_0
distributed conda-forge/noarch::distributed-2025.11.0-pyhcf101f3_0
docopt conda-forge/noarch::docopt-0.6.2-pyhd8ed1ab_2
fonttools conda-forge/linux-64::fonttools-4.60.1-py312h8a5da7c_0
freetype conda-forge/linux-64::freetype-2.14.1-ha770c72_0
fsspec conda-forge/noarch::fsspec-2025.10.0-pyhd8ed1ab_0
gflags conda-forge/linux-64::gflags-2.2.2-h5888daf_1005
glog conda-forge/linux-64::glog-0.7.1-hbabe93e_0
h2 conda-forge/noarch::h2-4.3.0-pyhcf101f3_0
h5py conda-forge/linux-64::h5py-3.15.1-nompi_py312ha4f8f14_100
hdf5 conda-forge/linux-64::hdf5-1.14.6-nompi_h6e4c0c1_103
hicstuff bioconda/noarch::hicstuff-3.2.4-pyhdfd78af_0
hpack conda-forge/noarch::hpack-4.1.0-pyhd8ed1ab_0
htslib bioconda/linux-64::htslib-1.22.1-h566b1c6_0
hyperframe conda-forge/noarch::hyperframe-6.1.0-pyhd8ed1ab_0
icu conda-forge/linux-64::icu-75.1-he02047a_0
idna conda-forge/noarch::idna-3.11-pyhd8ed1ab_0
importlib-metadata conda-forge/noarch::importlib-metadata-8.7.0-pyhe01879c_1
jinja2 conda-forge/noarch::jinja2-3.1.6-pyhd8ed1ab_0
joblib conda-forge/noarch::joblib-1.5.2-pyhd8ed1ab_0
jsonschema conda-forge/noarch::jsonschema-4.25.1-pyhe01879c_0
jsonschema-specif~ conda-forge/noarch::jsonschema-specifications-2025.9.1-pyhcf101f3_0
k8 bioconda/linux-64::k8-1.2-he8db53b_6
kernel-headers_li~ conda-forge/noarch::kernel-headers_linux-64-6.12.0-he073ed8_2
keyutils conda-forge/linux-64::keyutils-1.6.3-hb9d3cd8_0
kiwisolver conda-forge/linux-64::kiwisolver-1.4.9-py312h0a2e395_2
krb5 conda-forge/linux-64::krb5-1.21.3-h659f571_0
lcms2 conda-forge/linux-64::lcms2-2.17-h717163a_0
ld_impl_linux-64 conda-forge/linux-64::ld_impl_linux-64-2.45-h1aa0949_0
lerc conda-forge/linux-64::lerc-4.0.0-h0aef613_1
libabseil conda-forge/linux-64::libabseil-20250512.1-cxx17_hba17884_0
libaec conda-forge/linux-64::libaec-1.1.4-h3f801dc_0
libarrow conda-forge/linux-64::libarrow-22.0.0-h773bc41_4_cpu
libarrow-acero conda-forge/linux-64::libarrow-acero-22.0.0-h635bf11_4_cpu
libarrow-compute conda-forge/linux-64::libarrow-compute-22.0.0-h8c2c5c3_4_cpu
libarrow-dataset conda-forge/linux-64::libarrow-dataset-22.0.0-h635bf11_4_cpu
libarrow-substrait conda-forge/linux-64::libarrow-substrait-22.0.0-h3f74fd7_4_cpu
libblas conda-forge/linux-64::libblas-3.11.0-0_h4a7cf45_openblas
libbrotlicommon conda-forge/linux-64::libbrotlicommon-1.2.0-h09219d5_0
libbrotlidec conda-forge/linux-64::libbrotlidec-1.2.0-hd53d788_0
libbrotlienc conda-forge/linux-64::libbrotlienc-1.2.0-h02bd7ab_0
libcblas conda-forge/linux-64::libcblas-3.11.0-0_h0358290_openblas
libcrc32c conda-forge/linux-64::libcrc32c-1.1.2-h9c3ff4c_0
libcurl conda-forge/linux-64::libcurl-8.17.0-h4e3cde8_0
libdeflate conda-forge/linux-64::libdeflate-1.25-h17f619e_0
libedit conda-forge/linux-64::libedit-3.1.20250104-pl5321h7949ede_0
libev conda-forge/linux-64::libev-4.33-hd590300_2
libevent conda-forge/linux-64::libevent-2.1.12-hf998b51_1
libexpat conda-forge/linux-64::libexpat-2.7.1-hecca717_0
libffi conda-forge/linux-64::libffi-3.4.6-h2dba641_1
libfreetype conda-forge/linux-64::libfreetype-2.14.1-ha770c72_0
libfreetype6 conda-forge/linux-64::libfreetype6-2.14.1-h73754d4_0
libgcc conda-forge/linux-64::libgcc-15.2.0-h767d61c_7
libgcc-ng conda-forge/linux-64::libgcc-ng-15.2.0-h69a702a_7
libgfortran conda-forge/linux-64::libgfortran-15.2.0-h69a702a_7
libgfortran5 conda-forge/linux-64::libgfortran5-15.2.0-hcd61629_7
libgomp conda-forge/linux-64::libgomp-15.2.0-h767d61c_7
libgoogle-cloud conda-forge/linux-64::libgoogle-cloud-2.39.0-hdb79228_0
libgoogle-cloud-s~ conda-forge/linux-64::libgoogle-cloud-storage-2.39.0-hdbdcf42_0
libgrpc conda-forge/linux-64::libgrpc-1.73.1-h3288cfb_1
libiconv conda-forge/linux-64::libiconv-1.18-h3b78370_2
libjpeg-turbo conda-forge/linux-64::libjpeg-turbo-3.1.2-hb03c661_0
liblapack conda-forge/linux-64::liblapack-3.11.0-0_h47877c9_openblas
liblzma conda-forge/linux-64::liblzma-5.8.1-hb9d3cd8_2
libnghttp2 conda-forge/linux-64::libnghttp2-1.67.0-had1ee68_0
libnsl conda-forge/linux-64::libnsl-2.0.1-hb9d3cd8_1
libopenblas conda-forge/linux-64::libopenblas-0.3.30-pthreads_h94d23a6_4
libopentelemetry-~ conda-forge/linux-64::libopentelemetry-cpp-1.21.0-hb9b0907_1
libopentelemetry-~ conda-forge/linux-64::libopentelemetry-cpp-headers-1.21.0-ha770c72_1
libparquet conda-forge/linux-64::libparquet-22.0.0-h7376487_4_cpu
libpng conda-forge/linux-64::libpng-1.6.50-h421ea60_1
libprotobuf conda-forge/linux-64::libprotobuf-6.31.1-h49aed37_2
libre2-11 conda-forge/linux-64::libre2-11-2025.11.05-h7b12aa8_0
libsqlite conda-forge/linux-64::libsqlite-3.51.0-hee844dc_0
libssh2 conda-forge/linux-64::libssh2-1.11.1-hcf80075_0
libstdcxx conda-forge/linux-64::libstdcxx-15.2.0-h8f9b012_7
libstdcxx-ng conda-forge/linux-64::libstdcxx-ng-15.2.0-h4852527_7
libthrift conda-forge/linux-64::libthrift-0.22.0-h454ac66_1
libtiff conda-forge/linux-64::libtiff-4.7.1-h9d88235_1
libutf8proc conda-forge/linux-64::libutf8proc-2.11.1-hfe17d71_0
libuuid conda-forge/linux-64::libuuid-2.41.2-he9a06e4_0
libwebp-base conda-forge/linux-64::libwebp-base-1.6.0-hd42ef1d_0
libxcb conda-forge/linux-64::libxcb-1.17.0-h8a09558_0
libxcrypt conda-forge/linux-64::libxcrypt-4.4.36-hd590300_1
libxml2 conda-forge/linux-64::libxml2-2.15.1-h26afc86_0
libxml2-16 conda-forge/linux-64::libxml2-16-2.15.1-ha9997c6_0
libzlib conda-forge/linux-64::libzlib-1.3.1-hb9d3cd8_2
locket conda-forge/noarch::locket-1.0.0-pyhd8ed1ab_0
lz4 conda-forge/linux-64::lz4-4.4.5-py312h3d67a73_0
lz4-c conda-forge/linux-64::lz4-c-1.10.0-h5888daf_1
markupsafe conda-forge/linux-64::markupsafe-3.0.3-py312h8a5da7c_0
matplotlib-base conda-forge/linux-64::matplotlib-base-3.10.8-py312he3d6523_0
minimap2 bioconda/linux-64::minimap2-2.30-h577a1d6_0
msgpack-python conda-forge/linux-64::msgpack-python-1.1.2-py312hd9148b4_1
multiprocess conda-forge/linux-64::multiprocess-0.70.18-py312h5253ce2_2
munkres conda-forge/noarch::munkres-1.1.4-pyhd8ed1ab_1
narwhals conda-forge/noarch::narwhals-2.12.0-pyhcf101f3_0
ncurses conda-forge/linux-64::ncurses-6.5-h2d0b736_3
nlohmann_json conda-forge/linux-64::nlohmann_json-3.12.0-h54a6638_1
numpy conda-forge/linux-64::numpy-1.26.4-py312heda63a1_0
openjpeg conda-forge/linux-64::openjpeg-2.5.4-h55fea9a_0
openssl conda-forge/linux-64::openssl-3.6.0-h26f9b46_0
orc conda-forge/linux-64::orc-2.2.1-hd747db4_0
packaging conda-forge/noarch::packaging-25.0-pyh29332c3_1
pairix bioconda/linux-64::pairix-0.3.9-py312h4711d71_0
pairtools bioconda/linux-64::pairtools-1.1.3-py312h5219090_0
pandas conda-forge/linux-64::pandas-2.3.3-py312hf79963d_1
partd conda-forge/noarch::partd-1.4.2-pyhd8ed1ab_0
pbgzip bioconda/linux-64::pbgzip-2016.08.04-hb1d24b7_6
perl conda-forge/linux-64::perl-5.32.1-7_hd590300_perl5
pillow conda-forge/linux-64::pillow-12.0.0-py312h0889fd4_0
pip conda-forge/noarch::pip-25.3-pyh8b19718_0
prometheus-cpp conda-forge/linux-64::prometheus-cpp-1.3.0-ha5d0236_0
psutil conda-forge/linux-64::psutil-7.1.3-py312h5253ce2_0
pthread-stubs conda-forge/linux-64::pthread-stubs-0.4-hb9d3cd8_1002
pyarrow conda-forge/linux-64::pyarrow-22.0.0-py312h7900ff3_0
pyarrow-core conda-forge/linux-64::pyarrow-core-22.0.0-py312hc195796_0_cpu
pycparser conda-forge/noarch::pycparser-2.22-pyh29332c3_1
pyfaidx bioconda/noarch::pyfaidx-0.9.0.3-pyhdfd78af_0
pyfastx bioconda/linux-64::pyfastx-2.2.0-py312h4711d71_1
pyparsing conda-forge/noarch::pyparsing-3.2.5-pyhcf101f3_0
pysam bioconda/linux-64::pysam-0.23.3-py312h47d5410_1
pysocks conda-forge/noarch::pysocks-1.7.1-pyha55dd90_7
python conda-forge/linux-64::python-3.12.11-h9e4cc4f_0_cpython
python-dateutil conda-forge/noarch::python-dateutil-2.9.0.post0-pyhe01879c_2
python-tzdata conda-forge/noarch::python-tzdata-2025.2-pyhd8ed1ab_0
python_abi conda-forge/noarch::python_abi-3.12-8_cp312
pytz conda-forge/noarch::pytz-2025.2-pyhd8ed1ab_0
pyvcf3 bioconda/linux-64::pyvcf3-1.0.4-py312h0fa9677_0
pyyaml conda-forge/linux-64::pyyaml-6.0.3-py312h8a5da7c_0
qhull conda-forge/linux-64::qhull-2020.2-h434a139_5
re2 conda-forge/linux-64::re2-2025.11.05-h5301d42_0
readline conda-forge/linux-64::readline-8.2-h8c095d6_2
referencing conda-forge/noarch::referencing-0.37.0-pyhcf101f3_0
requests conda-forge/noarch::requests-2.32.5-pyhd8ed1ab_0
rpds-py conda-forge/linux-64::rpds-py-0.29.0-py312h868fb18_0
s2n conda-forge/linux-64::s2n-1.6.0-h8399546_1
samtools bioconda/linux-64::samtools-1.22.1-h96c455f_0
scikit-learn conda-forge/linux-64::scikit-learn-1.7.2-py312h4f0b9e3_0
scipy conda-forge/linux-64::scipy-1.16.3-py312h7a1785b_1
setuptools conda-forge/noarch::setuptools-80.9.0-pyhff2d567_0
simplejson conda-forge/linux-64::simplejson-3.20.2-py312h4c3975b_1
six conda-forge/noarch::six-1.17.0-pyhe01879c_1
snappy conda-forge/linux-64::snappy-1.2.2-h03e3b7b_1
sortedcontainers conda-forge/noarch::sortedcontainers-2.4.0-pyhd8ed1ab_1
sysroot_linux-64 conda-forge/noarch::sysroot_linux-64-2.39-hc4b9eeb_2
tblib conda-forge/noarch::tblib-3.2.2-pyhcf101f3_0
threadpoolctl conda-forge/noarch::threadpoolctl-3.6.0-pyhecae5ae_0
tk conda-forge/linux-64::tk-8.6.13-noxft_ha0e22de_103
toolz conda-forge/noarch::toolz-1.1.0-pyhd8ed1ab_1
tornado conda-forge/linux-64::tornado-6.5.2-py312h4c3975b_2
typing_extensions conda-forge/noarch::typing_extensions-4.15.0-pyhcf101f3_0
tzdata conda-forge/noarch::tzdata-2025b-h78e105d_0
unicodedata2 conda-forge/linux-64::unicodedata2-17.0.0-py312h4c3975b_1
urllib3 conda-forge/noarch::urllib3-2.5.0-pyhd8ed1ab_0
wheel conda-forge/noarch::wheel-0.45.1-pyhd8ed1ab_1
xorg-libxau conda-forge/linux-64::xorg-libxau-1.0.12-hb03c661_1
xorg-libxdmcp conda-forge/linux-64::xorg-libxdmcp-1.1.5-hb03c661_1
xyzservices conda-forge/noarch::xyzservices-2025.10.0-pyhd8ed1ab_0
yaml conda-forge/linux-64::yaml-0.2.5-h280c20c_3
zict conda-forge/noarch::zict-3.0.0-pyhd8ed1ab_1
zipp conda-forge/noarch::zipp-3.23.0-pyhd8ed1ab_0
zlib conda-forge/linux-64::zlib-1.3.1-hb9d3cd8_2
zlib-ng conda-forge/linux-64::zlib-ng-2.2.5-hde8ca8f_0
zstandard conda-forge/linux-64::zstandard-0.25.0-py312h5253ce2_1
zstd conda-forge/linux-64::zstd-1.5.7-hb8e6e7a_2
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Quitting from HiCool.Rmd:70-80 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `py_get_attr()`:
! AttributeError: module 'hicstuff' has no attribute 'pipeline'
Run `reticulate::py_last_error()` for details.
---
Backtrace:
▆
1. └─HiCool::HiCool(...)
2. └─HiCool:::.processFastq(...)
3. ├─base::write(...)
4. │ └─base::cat(...)
5. ├─reticulate::py_capture_output(...)
6. │ ├─base::tryCatch(...)
7. │ │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
8. │ └─base::force(expr)
9. ├─hs$pipeline
10. └─reticulate:::`$.python.builtin.module`(hs, "pipeline")
11. └─reticulate::py_get_attr(x, name, FALSE)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'HiCool.Rmd' failed with diagnostics:
AttributeError: module 'hicstuff' has no attribute 'pipeline'
Run `reticulate::py_last_error()` for details.
--- failed re-building ‘HiCool.Rmd’
SUMMARY: processing the following file failed:
‘HiCool.Rmd’
Error: Vignette re-building failed.
Execution halted