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CycloneSEQ-Bioinformatics / Bamboo

Bamboo: a tool for quality control and error profiling of long-read sequencing data.
GNU General Public License v3.0
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A error when running bamboo #16

Open wangduo-ux opened 2 weeks ago

wangduo-ux commented 2 weeks ago

hello, I recently installed and ran the Bamboo for an alignment BAM file (Nanopore) following the author's instructions; however, the following errors occurred. Can you help me address the problem?

2024-11-06 16:31:14 - INFO - Failed to extract font properties from /usr/share/fonts/truetype/noto/NotoColorEmoji.ttf: In FT2Font: Can not load face (unknown file format; error code 0x2) 2024-11-06 16:31:14 - INFO - generated new fontManager Traceback (most recent call last): File "pandas/init.py", line 29, in File "PyInstaller/loader/pyimod02_importers.py", line 378, in exec_module File "pandas/_libs/init.py", line 13, in File "pandas/_libs/interval.pyx", line 1, in init pandas._libs.interval File "pandas/_libs/hashtable.pyx", line 1, in init pandas._libs.hashtable File "pandas/_libs/missing.pyx", line 1, in init pandas._libs.missing File "PyInstaller/loader/pyimod02_importers.py", line 378, in exec_module File "pandas/_libs/tslibs/init.py", line 30, in File "pandas/_libs/tslibs/conversion.pyx", line 1, in init pandas._libs.tslibs.conversion ModuleNotFoundError: No module named 'pandas._libs.tslibs.base'

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

Traceback (most recent call last): File "main.py", line 8, in File "bamboo/main.py", line 204, in main File "PyInstaller/loader/pyimod02_importers.py", line 378, in exec_module File "bamboo/sequence.py", line 21, in File "PyInstaller/loader/pyimod02_importers.py", line 378, in exec_module File "bamboo/plot.py", line 9, in File "PyInstaller/loader/pyimod02_importers.py", line 378, in exec_module File "seaborn/init.py", line 2, in File "PyInstaller/loader/pyimod02_importers.py", line 378, in exec_module File "seaborn/rcmod.py", line 5, in File "PyInstaller/loader/pyimod02_importers.py", line 378, in exec_module File "seaborn/palettes.py", line 9, in File "PyInstaller/loader/pyimod02_importers.py", line 378, in exec_module File "seaborn/utils.py", line 11, in File "PyInstaller/loader/pyimod02_importers.py", line 378, in exec_module File "pandas/init.py", line 33, in ImportError: C extension: No module named 'pandas._libs.tslibs.base' not built. If you want to import pandas from the source directory, you may need to run 'python setup.py build_ext --force' to build the C extensions first. [PYI-2883876:ERROR] Failed to execute script 'main' due to unhandled exception!

jzhang-dev commented 2 weeks ago

Hi, we are currently looking into this issue. Meanwhile, you main try Bamboo v0.2.1 (https://github.com/CycloneSEQ-Bioinformatics/Bamboo/releases/tag/v0.2.1) and check whether the issue persists. Thank you.