| Back to Build/check report for BioC 3.22: simplified long |
|
This page was generated on 2026-03-14 11:57 -0400 (Sat, 14 Mar 2026).
| 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" | 4892 |
| 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 1.10.2 (landing page) Jacques Serizay
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| See other builds for HiCool in R Universe. | ||||||||||||||
|
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: 1.10.2 |
| Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 HiCool |
| StartedAt: 2026-03-13 18:05:55 -0400 (Fri, 13 Mar 2026) |
| EndedAt: 2026-03-13 18:08:06 -0400 (Fri, 13 Mar 2026) |
| EllapsedTime: 131.1 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
##############################################################################
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###
### 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
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/env1/0.2.0
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
---------------------------|-----------------
attrs-25.4.0 | pyhcf101f3_1 63 KB conda-forge
aws-c-auth-0.9.6 | hb9c0fe4_1 130 KB conda-forge
aws-c-cal-0.9.13 | h2c9d079_1 55 KB conda-forge
aws-c-common-0.12.6 | hb03c661_0 234 KB conda-forge
aws-c-compression-0.3.2 | h8b1a151_0 22 KB conda-forge
aws-c-event-stream-0.5.9 | h841be55_2 57 KB conda-forge
aws-c-http-0.10.10 | hf621c6d_0 220 KB conda-forge
aws-c-io-0.26.1 | hc87160b_2 177 KB conda-forge
aws-c-mqtt-0.14.0 | ha25ca29_1 215 KB conda-forge
aws-c-s3-0.11.5 | h9b5df67_3 148 KB conda-forge
aws-c-sdkutils-0.2.4 | h8b1a151_4 58 KB conda-forge
aws-checksums-0.2.10 | h8b1a151_0 99 KB conda-forge
aws-crt-cpp-0.37.3 | hb153662_0 400 KB conda-forge
aws-sdk-cpp-1.11.747 | h133b1ee_1 3.5 MB conda-forge
azure-core-cpp-1.16.2 | h206d751_0 341 KB conda-forge
azure-identity-cpp-1.13.3 | hed0cdb0_1 245 KB conda-forge
azure-storage-blobs-cpp-12.16.0| hdd73cc9_1 566 KB conda-forge
azure-storage-common-cpp-12.12.0| ha7a2c86_1 147 KB conda-forge
azure-storage-files-datalake-cpp-12.14.0| h52c5a47_1 295 KB conda-forge
backports.zstd-1.3.0 | py312h90b7ffd_0 232 KB conda-forge
biopython-1.86 | py312h4c3975b_1 3.1 MB conda-forge
bokeh-3.9.0 | pyhd8ed1ab_0 4.0 MB conda-forge
bowtie2-2.5.4 | he96a11b_7 10.1 MB bioconda
brotli-1.2.0 | hed03a55_1 20 KB conda-forge
brotli-bin-1.2.0 | hb03c661_1 21 KB conda-forge
brotli-python-1.2.0 | py312hdb49522_1 360 KB conda-forge
certifi-2026.2.25 | pyhd8ed1ab_0 148 KB conda-forge
charset-normalizer-3.4.5 | pyhd8ed1ab_0 52 KB conda-forge
click-8.3.1 | pyh8f84b5b_1 95 KB conda-forge
cloudpickle-3.1.2 | pyhcf101f3_1 27 KB conda-forge
contourpy-1.3.3 | py312h0a2e395_4 313 KB conda-forge
cycler-0.12.1 | pyhcf101f3_2 14 KB conda-forge
cytoolz-1.1.0 | py312h4c3975b_2 609 KB conda-forge
dask-2026.1.2 | pyhcf101f3_1 11 KB conda-forge
dask-core-2026.1.2 | pyhcf101f3_0 1.0 MB conda-forge
dill-0.4.1 | pyhcf101f3_0 93 KB conda-forge
distributed-2026.1.2 | pyhcf101f3_1 825 KB conda-forge
fonttools-4.62.0 | py312h8a5da7c_0 2.8 MB conda-forge
freetype-2.14.2 | ha770c72_0 170 KB conda-forge
fsspec-2026.2.0 | pyhd8ed1ab_0 145 KB conda-forge
h5py-3.15.1 |nompi_py312ha4f8f14_101 1.2 MB conda-forge
jinja2-3.1.6 | pyhcf101f3_1 118 KB conda-forge
joblib-1.5.3 | pyhd8ed1ab_0 221 KB conda-forge
jsonschema-4.26.0 | pyhcf101f3_0 80 KB conda-forge
kernel-headers_linux-64-6.12.0| he073ed8_6 1.5 MB conda-forge
kiwisolver-1.5.0 | py312h0a2e395_0 75 KB conda-forge
lcms2-2.18 | h0c24ade_0 244 KB conda-forge
lerc-4.1.0 | hdb68285_0 255 KB conda-forge
libabseil-20260107.1 | cxx17_h7b12aa8_0 1.3 MB conda-forge
libarrow-23.0.1 | hf605819_4_cpu 6.2 MB conda-forge
libarrow-acero-23.0.1 | h635bf11_4_cpu 595 KB conda-forge
libarrow-compute-23.0.1 | h53684a4_4_cpu 2.9 MB conda-forge
libarrow-dataset-23.0.1 | h635bf11_4_cpu 594 KB conda-forge
libarrow-substrait-23.0.1 | hb4dd7c2_4_cpu 507 KB conda-forge
libbrotlicommon-1.2.0 | hb03c661_1 78 KB conda-forge
libbrotlidec-1.2.0 | hb03c661_1 34 KB conda-forge
libbrotlienc-1.2.0 | hb03c661_1 291 KB conda-forge
libfreetype-2.14.2 | ha770c72_0 8 KB conda-forge
libfreetype6-2.14.2 | h73754d4_0 377 KB conda-forge
libgoogle-cloud-2.39.0 | h9d11ab5_1 1.2 MB conda-forge
libgoogle-cloud-storage-2.39.0| hdbdcf42_1 785 KB conda-forge
libgrpc-1.78.0 | h1d1128b_1 6.7 MB conda-forge
libopentelemetry-cpp-1.21.0| h9692893_2 876 KB conda-forge
libopentelemetry-cpp-headers-1.21.0| ha770c72_2 354 KB conda-forge
libparquet-23.0.1 | h7376487_4_cpu 1.3 MB conda-forge
libpng-1.6.55 | h421ea60_0 310 KB conda-forge
libprotobuf-6.33.5 | h2b00c02_0 3.5 MB conda-forge
libre2-11-2025.11.05 | h0dc7533_1 208 KB conda-forge
libstdcxx-ng-15.2.0 | hdf11a46_18 27 KB conda-forge
libutf8proc-2.11.3 | hfe17d71_0 84 KB conda-forge
libxml2-2.15.2 | he237659_0 45 KB conda-forge
libxml2-16-2.15.2 | hca6bf5a_0 544 KB conda-forge
lz4-4.4.5 | py312h3d67a73_1 43 KB conda-forge
markupsafe-3.0.3 | py312h8a5da7c_1 25 KB conda-forge
multiprocess-0.70.19 | py312h5253ce2_0 360 KB conda-forge
narwhals-2.18.0 | pyhcf101f3_0 274 KB conda-forge
orc-2.3.0 | h21090e2_0 1.4 MB conda-forge
packaging-26.0 | pyhcf101f3_0 70 KB conda-forge
pandas-3.0.1 | py312h8ecdadd_0 14.2 MB conda-forge
pillow-12.1.1 | py312h50c33e8_0 1006 KB conda-forge
pip-26.0.1 | pyh8b19718_0 1.1 MB conda-forge
psutil-7.2.2 | py312h5253ce2_0 220 KB conda-forge
pyarrow-23.0.1 | py312h7900ff3_0 28 KB conda-forge
pyarrow-core-23.0.1 |py312h2054cf2_0_cpu 4.6 MB conda-forge
pyfastx-2.3.0 | py312h71493bf_2 642 KB bioconda
pyparsing-3.3.2 | pyhcf101f3_0 108 KB conda-forge
pysam-0.23.3 | py312h8f9e533_2 3.8 MB bioconda
pyyaml-6.0.3 | py312h8a5da7c_1 194 KB conda-forge
re2-2025.11.05 | h5301d42_1 27 KB conda-forge
requests-2.32.5 | pyhcf101f3_1 62 KB conda-forge
rpds-py-0.30.0 | py312h868fb18_0 375 KB conda-forge
s2n-1.7.1 | h1cbb8d7_1 386 KB conda-forge
scikit-learn-1.8.0 |np2py312h3226591_1 9.3 MB conda-forge
scipy-1.17.1 | py312h54fa4ab_0 16.3 MB conda-forge
setuptools-82.0.1 | pyh332efcf_0 625 KB conda-forge
sysroot_linux-64-2.39 | hc4b9eeb_6 40.1 MB conda-forge
tornado-6.5.4 | py312h961da02_0 831 KB conda-forge
unicodedata2-17.0.1 | py312h4c3975b_0 401 KB conda-forge
urllib3-2.6.3 | pyhd8ed1ab_0 101 KB conda-forge
wheel-0.46.3 | pyhd8ed1ab_0 31 KB conda-forge
xyzservices-2025.11.0 | pyhd8ed1ab_0 50 KB conda-forge
zipp-3.23.0 | pyhcf101f3_1 24 KB conda-forge
zlib-ng-2.3.3 | hceb46e0_1 120 KB conda-forge
------------------------------------------------------------
Total: 159.9 MB
The following NEW packages will be INSTALLED:
_openmp_mutex conda-forge/linux-64::_openmp_mutex-4.5-20_gnu
asciitree conda-forge/noarch::asciitree-0.3.3-py_2
attrs conda-forge/noarch::attrs-25.4.0-pyhcf101f3_1
aws-c-auth conda-forge/linux-64::aws-c-auth-0.9.6-hb9c0fe4_1
aws-c-cal conda-forge/linux-64::aws-c-cal-0.9.13-h2c9d079_1
aws-c-common conda-forge/linux-64::aws-c-common-0.12.6-hb03c661_0
aws-c-compression conda-forge/linux-64::aws-c-compression-0.3.2-h8b1a151_0
aws-c-event-stream conda-forge/linux-64::aws-c-event-stream-0.5.9-h841be55_2
aws-c-http conda-forge/linux-64::aws-c-http-0.10.10-hf621c6d_0
aws-c-io conda-forge/linux-64::aws-c-io-0.26.1-hc87160b_2
aws-c-mqtt conda-forge/linux-64::aws-c-mqtt-0.14.0-ha25ca29_1
aws-c-s3 conda-forge/linux-64::aws-c-s3-0.11.5-h9b5df67_3
aws-c-sdkutils conda-forge/linux-64::aws-c-sdkutils-0.2.4-h8b1a151_4
aws-checksums conda-forge/linux-64::aws-checksums-0.2.10-h8b1a151_0
aws-crt-cpp conda-forge/linux-64::aws-crt-cpp-0.37.3-hb153662_0
aws-sdk-cpp conda-forge/linux-64::aws-sdk-cpp-1.11.747-h133b1ee_1
azure-core-cpp conda-forge/linux-64::azure-core-cpp-1.16.2-h206d751_0
azure-identity-cpp conda-forge/linux-64::azure-identity-cpp-1.13.3-hed0cdb0_1
azure-storage-blo~ conda-forge/linux-64::azure-storage-blobs-cpp-12.16.0-hdd73cc9_1
azure-storage-com~ conda-forge/linux-64::azure-storage-common-cpp-12.12.0-ha7a2c86_1
azure-storage-fil~ conda-forge/linux-64::azure-storage-files-datalake-cpp-12.14.0-h52c5a47_1
backports.zstd conda-forge/linux-64::backports.zstd-1.3.0-py312h90b7ffd_0
bioframe bioconda/noarch::bioframe-0.8.0-pyhdfd78af_0
biopython conda-forge/linux-64::biopython-1.86-py312h4c3975b_1
bokeh conda-forge/noarch::bokeh-3.9.0-pyhd8ed1ab_0
bowtie2 bioconda/linux-64::bowtie2-2.5.4-he96a11b_7
brotli conda-forge/linux-64::brotli-1.2.0-hed03a55_1
brotli-bin conda-forge/linux-64::brotli-bin-1.2.0-hb03c661_1
brotli-python conda-forge/linux-64::brotli-python-1.2.0-py312hdb49522_1
bzip2 conda-forge/linux-64::bzip2-1.0.8-hda65f42_9
c-ares conda-forge/linux-64::c-ares-1.34.6-hb03c661_0
ca-certificates conda-forge/noarch::ca-certificates-2026.2.25-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-2026.2.25-pyhd8ed1ab_0
charset-normalizer conda-forge/noarch::charset-normalizer-3.4.5-pyhd8ed1ab_0
chromosight bioconda/noarch::chromosight-1.6.3-pyhdfd78af_0
click conda-forge/noarch::click-8.3.1-pyh8f84b5b_1
cloudpickle conda-forge/noarch::cloudpickle-3.1.2-pyhcf101f3_1
contourpy conda-forge/linux-64::contourpy-1.3.3-py312h0a2e395_4
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-pyhcf101f3_2
cytoolz conda-forge/linux-64::cytoolz-1.1.0-py312h4c3975b_2
dask conda-forge/noarch::dask-2026.1.2-pyhcf101f3_1
dask-core conda-forge/noarch::dask-core-2026.1.2-pyhcf101f3_0
dill conda-forge/noarch::dill-0.4.1-pyhcf101f3_0
distributed conda-forge/noarch::distributed-2026.1.2-pyhcf101f3_1
docopt conda-forge/noarch::docopt-0.6.2-pyhd8ed1ab_2
fonttools conda-forge/linux-64::fonttools-4.62.0-py312h8a5da7c_0
freetype conda-forge/linux-64::freetype-2.14.2-ha770c72_0
fsspec conda-forge/noarch::fsspec-2026.2.0-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_101
hdf5 conda-forge/linux-64::hdf5-1.14.6-nompi_h19486de_106
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-78.2-h33c6efd_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-pyhcf101f3_1
joblib conda-forge/noarch::joblib-1.5.3-pyhd8ed1ab_0
jsonschema conda-forge/noarch::jsonschema-4.26.0-pyhcf101f3_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_6
keyutils conda-forge/linux-64::keyutils-1.6.3-hb9d3cd8_0
kiwisolver conda-forge/linux-64::kiwisolver-1.5.0-py312h0a2e395_0
krb5 conda-forge/linux-64::krb5-1.22.2-ha1258a1_0
lcms2 conda-forge/linux-64::lcms2-2.18-h0c24ade_0
ld_impl_linux-64 conda-forge/linux-64::ld_impl_linux-64-2.45.1-default_hbd61a6d_101
lerc conda-forge/linux-64::lerc-4.1.0-hdb68285_0
libabseil conda-forge/linux-64::libabseil-20260107.1-cxx17_h7b12aa8_0
libaec conda-forge/linux-64::libaec-1.1.5-h088129d_0
libarrow conda-forge/linux-64::libarrow-23.0.1-hf605819_4_cpu
libarrow-acero conda-forge/linux-64::libarrow-acero-23.0.1-h635bf11_4_cpu
libarrow-compute conda-forge/linux-64::libarrow-compute-23.0.1-h53684a4_4_cpu
libarrow-dataset conda-forge/linux-64::libarrow-dataset-23.0.1-h635bf11_4_cpu
libarrow-substrait conda-forge/linux-64::libarrow-substrait-23.0.1-hb4dd7c2_4_cpu
libblas conda-forge/linux-64::libblas-3.11.0-5_h4a7cf45_openblas
libbrotlicommon conda-forge/linux-64::libbrotlicommon-1.2.0-hb03c661_1
libbrotlidec conda-forge/linux-64::libbrotlidec-1.2.0-hb03c661_1
libbrotlienc conda-forge/linux-64::libbrotlienc-1.2.0-hb03c661_1
libcblas conda-forge/linux-64::libcblas-3.11.0-5_h0358290_openblas
libcrc32c conda-forge/linux-64::libcrc32c-1.1.2-h9c3ff4c_0
libcurl conda-forge/linux-64::libcurl-8.19.0-hcf29cc6_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-2.7.4-hecca717_0
libffi conda-forge/linux-64::libffi-3.4.6-h2dba641_1
libfreetype conda-forge/linux-64::libfreetype-2.14.2-ha770c72_0
libfreetype6 conda-forge/linux-64::libfreetype6-2.14.2-h73754d4_0
libgcc conda-forge/linux-64::libgcc-15.2.0-he0feb66_18
libgcc-ng conda-forge/linux-64::libgcc-ng-15.2.0-h69a702a_18
libgfortran conda-forge/linux-64::libgfortran-15.2.0-h69a702a_18
libgfortran5 conda-forge/linux-64::libgfortran5-15.2.0-h68bc16d_18
libgomp conda-forge/linux-64::libgomp-15.2.0-he0feb66_18
libgoogle-cloud conda-forge/linux-64::libgoogle-cloud-2.39.0-h9d11ab5_1
libgoogle-cloud-s~ conda-forge/linux-64::libgoogle-cloud-storage-2.39.0-hdbdcf42_1
libgrpc conda-forge/linux-64::libgrpc-1.78.0-h1d1128b_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-3.11.0-5_h47877c9_openblas
liblzma conda-forge/linux-64::liblzma-5.8.2-hb03c661_0
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-h9692893_2
libopentelemetry-~ conda-forge/linux-64::libopentelemetry-cpp-headers-1.21.0-ha770c72_2
libparquet conda-forge/linux-64::libparquet-23.0.1-h7376487_4_cpu
libpng conda-forge/linux-64::libpng-1.6.55-h421ea60_0
libprotobuf conda-forge/linux-64::libprotobuf-6.33.5-h2b00c02_0
libre2-11 conda-forge/linux-64::libre2-11-2025.11.05-h0dc7533_1
libsqlite conda-forge/linux-64::libsqlite-3.52.0-hf4e2dac_0
libssh2 conda-forge/linux-64::libssh2-1.11.1-hcf80075_0
libstdcxx conda-forge/linux-64::libstdcxx-15.2.0-h934c35e_18
libstdcxx-ng conda-forge/linux-64::libstdcxx-ng-15.2.0-hdf11a46_18
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-2.11.3-hfe17d71_0
libuuid conda-forge/linux-64::libuuid-2.41.3-h5347b49_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::libxml2-2.15.2-he237659_0
libxml2-16 conda-forge/linux-64::libxml2-16-2.15.2-hca6bf5a_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_1
lz4-c conda-forge/linux-64::lz4-c-1.10.0-h5888daf_1
markupsafe conda-forge/linux-64::markupsafe-3.0.3-py312h8a5da7c_1
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-0.70.19-py312h5253ce2_0
munkres conda-forge/noarch::munkres-1.1.4-pyhd8ed1ab_1
narwhals conda-forge/noarch::narwhals-2.18.0-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-3.6.1-h35e630c_1
orc conda-forge/linux-64::orc-2.3.0-h21090e2_0
packaging conda-forge/noarch::packaging-26.0-pyhcf101f3_0
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-3.0.1-py312h8ecdadd_0
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-12.1.1-py312h50c33e8_0
pip conda-forge/noarch::pip-26.0.1-pyh8b19718_0
prometheus-cpp conda-forge/linux-64::prometheus-cpp-1.3.0-ha5d0236_0
psutil conda-forge/linux-64::psutil-7.2.2-py312h5253ce2_0
pthread-stubs conda-forge/linux-64::pthread-stubs-0.4-hb9d3cd8_1002
pyarrow conda-forge/linux-64::pyarrow-23.0.1-py312h7900ff3_0
pyarrow-core conda-forge/linux-64::pyarrow-core-23.0.1-py312h2054cf2_0_cpu
pyfaidx bioconda/noarch::pyfaidx-0.9.0.3-pyhdfd78af_0
pyfastx bioconda/linux-64::pyfastx-2.3.0-py312h71493bf_2
pyparsing conda-forge/noarch::pyparsing-3.3.2-pyhcf101f3_0
pysam bioconda/linux-64::pysam-0.23.3-py312h8f9e533_2
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_abi conda-forge/noarch::python_abi-3.12-8_cp312
pyvcf3 bioconda/linux-64::pyvcf3-1.0.4-py312h0fa9677_0
pyyaml conda-forge/linux-64::pyyaml-6.0.3-py312h8a5da7c_1
qhull conda-forge/linux-64::qhull-2020.2-h434a139_5
re2 conda-forge/linux-64::re2-2025.11.05-h5301d42_1
readline conda-forge/linux-64::readline-8.3-h853b02a_0
referencing conda-forge/noarch::referencing-0.37.0-pyhcf101f3_0
requests conda-forge/noarch::requests-2.32.5-pyhcf101f3_1
rpds-py conda-forge/linux-64::rpds-py-0.30.0-py312h868fb18_0
s2n conda-forge/linux-64::s2n-1.7.1-h1cbb8d7_1
samtools bioconda/linux-64::samtools-1.22.1-h96c455f_0
scikit-learn conda-forge/linux-64::scikit-learn-1.8.0-np2py312h3226591_1
scipy conda-forge/linux-64::scipy-1.17.1-py312h54fa4ab_0
setuptools conda-forge/noarch::setuptools-82.0.1-pyh332efcf_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_6
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_h366c992_103
toolz conda-forge/noarch::toolz-1.1.0-pyhd8ed1ab_1
tornado conda-forge/linux-64::tornado-6.5.4-py312h961da02_0
typing_extensions conda-forge/noarch::typing_extensions-4.15.0-pyhcf101f3_0
tzdata conda-forge/noarch::tzdata-2025c-hc9c84f9_1
unicodedata2 conda-forge/linux-64::unicodedata2-17.0.1-py312h4c3975b_0
urllib3 conda-forge/noarch::urllib3-2.6.3-pyhd8ed1ab_0
wheel conda-forge/noarch::wheel-0.46.3-pyhd8ed1ab_0
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-2025.11.0-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-pyhcf101f3_1
zlib conda-forge/linux-64::zlib-1.3.1-hb9d3cd8_2
zlib-ng conda-forge/linux-64::zlib-ng-2.3.3-hceb46e0_1
zstd conda-forge/linux-64::zstd-1.5.7-hb78ec9c_6
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