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| ✓ Initialized. View run at | |
| https://modal.com/apps/miyu-wannaone-horiuchi/main/ap-196pygWm6l2FWYPkEkdjUH | |
| Building image im-Zq0oFsY4NHhsLRUkQXD217 | |
| => Step 0: FROM base | |
| => Step 1: RUN python -m pip install 'pyhmmer>=0.12' 'pyrodigal>=3.5' 'requests>=2.32' | |
| Looking in indexes: http://pypi-mirror.modal.local:5555/simple | |
| Collecting pyhmmer>=0.12 | |
| Downloading http://pypi-mirror.modal.local:5555/simple/pyhmmer/pyhmmer-0.12.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (14 kB) | |
| Collecting pyrodigal>=3.5 | |
| Downloading http://pypi-mirror.modal.local:5555/simple/pyrodigal/pyrodigal-3.7.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (15 kB) | |
| Collecting requests>=2.32 | |
| Downloading http://pypi-mirror.modal.local:5555/simple/requests/requests-2.34.2-py3-none-any.whl.metadata (4.8 kB) | |
| Collecting psutil<8.0,>=5.0 (from pyhmmer>=0.12) | |
| Downloading http://pypi-mirror.modal.local:5555/simple/psutil/psutil-7.2.2-cp36-abi3-manylinux2010_x86_64.manylinux_2_12_x86_64.manylinux_2_28_x86_64.whl.metadata (22 kB) | |
| Collecting archspec~=0.2.0 (from pyrodigal>=3.5) | |
| Downloading http://pypi-mirror.modal.local:5555/simple/archspec/archspec-0.2.6-py3-none-any.whl.metadata (4.4 kB) | |
| Collecting charset_normalizer<4,>=2 (from requests>=2.32) | |
| Downloading http://pypi-mirror.modal.local:5555/simple/charset-normalizer/charset_normalizer-3.4.7-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl.metadata (40 kB) | |
| Collecting idna<4,>=2.5 (from requests>=2.32) | |
| Downloading http://pypi-mirror.modal.local:5555/simple/idna/idna-3.15-py3-none-any.whl.metadata (7.7 kB) | |
| Collecting urllib3<3,>=1.26 (from requests>=2.32) | |
| Downloading http://pypi-mirror.modal.local:5555/simple/urllib3/urllib3-2.7.0-py3-none-any.whl.metadata (6.9 kB) | |
| Collecting certifi>=2023.5.7 (from requests>=2.32) | |
| Downloading http://pypi-mirror.modal.local:5555/simple/certifi/certifi-2026.4.22-py3-none-any.whl.metadata (2.5 kB) | |
| Downloading http://pypi-mirror.modal.local:5555/simple/pyhmmer/pyhmmer-0.12.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (4.2 MB) | |
| ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 4.2/4.2 MB 187.8 MB/s 0:00:00 | |
| Downloading http://pypi-mirror.modal.local:5555/simple/psutil/psutil-7.2.2-cp36-abi3-manylinux2010_x86_64.manylinux_2_12_x86_64.manylinux_2_28_x86_64.whl (155 kB) | |
| Downloading http://pypi-mirror.modal.local:5555/simple/pyrodigal/pyrodigal-3.7.1-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (3.0 MB) | |
| ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.0/3.0 MB 181.7 MB/s 0:00:00 | |
| Downloading http://pypi-mirror.modal.local:5555/simple/archspec/archspec-0.2.6-py3-none-any.whl (81 kB) | |
| Downloading http://pypi-mirror.modal.local:5555/simple/requests/requests-2.34.2-py3-none-any.whl (73 kB) | |
| Downloading http://pypi-mirror.modal.local:5555/simple/charset-normalizer/charset_normalizer-3.4.7-cp311-cp311-manylinux2014_x86_64.manylinux_2_17_x86_64.manylinux_2_28_x86_64.whl (214 kB) | |
| Downloading http://pypi-mirror.modal.local:5555/simple/idna/idna-3.15-py3-none-any.whl (72 kB) | |
| Downloading http://pypi-mirror.modal.local:5555/simple/urllib3/urllib3-2.7.0-py3-none-any.whl (131 kB) | |
| Downloading http://pypi-mirror.modal.local:5555/simple/certifi/certifi-2026.4.22-py3-none-any.whl (135 kB) | |
| Installing collected packages: urllib3, psutil, idna, charset_normalizer, certifi, archspec, requests, pyrodigal, pyhmmer | |
| Successfully installed archspec-0.2.6 certifi-2026.4.22 charset_normalizer-3.4.7 idna-3.15 psutil-7.2.2 pyhmmer-0.12.1 pyrodigal-3.7.1 requests-2.34.2 urllib3-2.7.0 | |
| [notice] A new release of pip is available: 25.2 -> 26.1.1 | |
| [notice] To update, run: pip install --upgrade pip | |
| Saving image... | |
| Image saved, took 801.09ms | |
| Built image im-Zq0oFsY4NHhsLRUkQXD217 in 4.20s | |
| ✓ Created objects. | |
| ├── 🔨 Created mount | |
| │ /Users/miyuhoriuchi/microbe-model/scripts/36_extract_marker_sequences.py | |
| ├── 🔨 Created mount data/markers/unified/unified_markers.hmm | |
| └── 🔨 Created function MarkerSeqExtractor.*. | |
| Marker-sequence extract: 200 genomes pending (0 cached) | |
| max_per_cat=16 | |
| [setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs[setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs | |
| [setup] loaded 48 marker HMMs | |
| 100 ok / 1 fail | |
| Finished. 199 succeeded, 1 failed. | |
| Streamed to data/marker_sequences.jsonl | |
| Stopping app - local entrypoint completed. | |
| ✓ App completed. View run at | |
| https://modal.com/apps/miyu-wannaone-horiuchi/main/ap-196pygWm6l2FWYPkEkdjUH | |