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Bioconductor package installation error
ERROR conda.core.link:_execute(730): An error occurred while installing package 'bioconda::bioconductor-org.dm.eg.db-3.14.0-r41hdfd78af_0'.
Rolling back transaction: ...working... done
class: LinkError
message:
post-link script failed for package bioconda::bioconductor-org.dm.eg.db-3.14.0-r41hdfd78af_0
location of failed script: /home/laptop/miniconda3/envs/__bioconductor-org.dm.eg.db@_uv_/bin/.bioconductor-org.dm.eg.db-post-link.sh
==> script messages <==
<None>
==> script output <==
stdout: /home/laptop/miniconda3/envs/__bioconductor-org.dm.eg.db@_uv_/share/bioconductor-org.dm.eg.db-3.14.0-0/org.Dm.eg.db_3.14.0.tar.gz: FAILED
/home/laptop/miniconda3/envs/__bioconductor-org.dm.eg.db@_uv_/share/bioconductor-org.dm.eg.db-3.14.0-0/org.Dm.eg.db_3.14.0.tar.gz: FAILED
/home/laptop/miniconda3/envs/__bioconductor-org.dm.eg.db@_uv_/share/bioconductor-org.dm.eg.db-3.14.0-0/org.Dm.eg.db_3.14.0.tar.gz: FAILED
ERROR: post-link.sh was unable to download any of the following URLs with the md5sum 1ae0c515970576d9b369116586cefbe6:
https://bioconductor.org/packages/3.14/data/annotation/src/contrib/org.Dm.eg.db_3.14.0.tar.gz
https://bioarchive.galaxyproject.org/org.Dm.eg.db_3.14.0.tar.gz
https://depot.galaxyproject.org/software/bioconductor-org.dm.eg.db/bioconductor-org.dm.eg.db_3.14.0_src_all.tar.gz
stderr: % Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
100 413 100 413 0 0 7076 0 --:--:-- --:--:-- --:--:-- 7120
md5sum: WARNING: 1 computed checksum did NOT match
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
100 153 100 153 0 0 245 0 --:--:-- --:--:-- --:--:-- 245
md5sum: WARNING: 1 computed checksum did NOT match
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
100 153 100 153 0 0 233 0 --:--:-- --:--:-- --:--:-- 233
md5sum: WARNING: 1 computed checksum did NOT match
return code: 1
kwargs:
{}
Traceback (most recent call last):
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/exceptions.py", line 1114, in __call__
return func(*args, **kwargs)
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/cli/main.py", line 86, in main_subshell
exit_code = do_call(args, p)
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/cli/conda_argparse.py", line 90, in do_call
return getattr(module, func_name)(args, parser)
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/cli/main_create.py", line 41, in execute
install(args, parser, 'create')
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/cli/install.py", line 327, in install
handle_txn(unlink_link_transaction, prefix, args, newenv)
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/cli/install.py", line 356, in handle_txn
unlink_link_transaction.execute()
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/core/link.py", line 281, in execute
self._execute(tuple(concat(interleave(self.prefix_action_groups.values()))))
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/core/link.py", line 744, in _execute
raise CondaMultiError(tuple(concatv(
conda.CondaMultiErrorclass: LinkError
message:
post-link script failed for package bioconda::bioconductor-org.dm.eg.db-3.14.0-r41hdfd78af_0
location of failed script: /home/laptop/miniconda3/envs/__bioconductor-org.dm.eg.db@_uv_/bin/.bioconductor-org.dm.eg.db-post-link.sh
==> script messages <==
<None>
==> script output <==
stdout: /home/laptop/miniconda3/envs/__bioconductor-org.dm.eg.db@_uv_/share/bioconductor-org.dm.eg.db-3.14.0-0/org.Dm.eg.db_3.14.0.tar.gz: FAILED
/home/laptop/miniconda3/envs/__bioconductor-org.dm.eg.db@_uv_/share/bioconductor-org.dm.eg.db-3.14.0-0/org.Dm.eg.db_3.14.0.tar.gz: FAILED
/home/laptop/miniconda3/envs/__bioconductor-org.dm.eg.db@_uv_/share/bioconductor-org.dm.eg.db-3.14.0-0/org.Dm.eg.db_3.14.0.tar.gz: FAILED
ERROR: post-link.sh was unable to download any of the following URLs with the md5sum 1ae0c515970576d9b369116586cefbe6:
https://bioconductor.org/packages/3.14/data/annotation/src/contrib/org.Dm.eg.db_3.14.0.tar.gz
https://bioarchive.galaxyproject.org/org.Dm.eg.db_3.14.0.tar.gz
https://depot.galaxyproject.org/software/bioconductor-org.dm.eg.db/bioconductor-org.dm.eg.db_3.14.0_src_all.tar.gz
stderr: % Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
100 413 100 413 0 0 7076 0 --:--:-- --:--:-- --:--:-- 7120
md5sum: WARNING: 1 computed checksum did NOT match
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
100 153 100 153 0 0 245 0 --:--:-- --:--:-- --:--:-- 245
md5sum: WARNING: 1 computed checksum did NOT match
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
100 153 100 153 0 0 233 0 --:--:-- --:--:-- --:--:-- 233
md5sum: WARNING: 1 computed checksum did NOT match
return code: 1
kwargs:
{}
: <exception str() failed>
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/home/laptop/miniconda3/bin/conda", line 13, in <module>
sys.exit(main())
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/cli/main.py", line 128, in main
return conda_exception_handler(main, *args, **kwargs)
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/exceptions.py", line 1404, in conda_exception_handler
return_value = exception_handler(func, *args, **kwargs)
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/exceptions.py", line 1117, in __call__
return self.handle_exception(exc_val, exc_tb)
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/exceptions.py", line 1148, in handle_exception
return self.handle_application_exception(exc_val, exc_tb)
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/exceptions.py", line 1162, in handle_application_exception
self._print_conda_exception(exc_val, exc_tb)
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/exceptions.py", line 1166, in _print_conda_exception
print_conda_exception(exc_val, exc_tb)
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/exceptions.py", line 1091, in print_conda_exception
stderrlog.error("\n%r\n", exc_val)
File "/home/laptop/miniconda3/lib/python3.9/logging/__init__.py", line 1475, in error
self._log(ERROR, msg, args, **kwargs)
File "/home/laptop/miniconda3/lib/python3.9/logging/__init__.py", line 1589, in _log
self.handle(record)
File "/home/laptop/miniconda3/lib/python3.9/logging/__init__.py", line 1598, in handle
if (not self.disabled) and self.filter(record):
File "/home/laptop/miniconda3/lib/python3.9/logging/__init__.py", line 806, in filter
result = f.filter(record)
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/gateways/logging.py", line 51, in filter
record.msg = record.msg % new_args
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/__init__.py", line 101, in __repr__
errs.append(e.__repr__())
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/__init__.py", line 58, in __repr__
return '%s: %s' % (self.__class__.__name__, str(self))
File "/home/laptop/miniconda3/lib/python3.9/site-packages/conda/__init__.py", line 62, in __str__
return str(self.message % self._kwargs)
ValueError: unsupported format character 'T' (0x54) at index 1106
Remove all packages in environment /home/laptop/miniconda3/envs/__bioconductor-org.dm.eg.db@_uv_:
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... ^Cfailed with repodata from current_repodata.json, will retry with next repodata source.
[2022-08-23 11:14:00 +0200] [163102] [INFO] Handling signal: int
CondaError: KeyboardInterrupt
^C[2022-08-23 11:14:01 +0200] [163102] [WARNING] Worker with pid 163119 was terminated due to signal 3
[2022-08-23 11:14:01 +0200] [163102] [INFO] Shutting down: Master
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