BOL: 's questions

Alienomics error, how to fix it !

LEGE — Thu, 09 May 2024 01:18:03 -0500

(perlENV) [raj@hn1 bin]$ ./alienomics_v0.3.2
Can't load '/tmp/par-6a6e61726179616e/cache-b3e30287a6ce7f2b069c63e57901fcbf1d6597d7/5b8c5ac2.so' for module POSIX: /lib64/libm.so.6: version `GLIBC_2.23' not found (required by /tmp/par-6a6e61726179616e/cache-b3e30287a6ce7f2b069c63e57901fcbf1d6597d7/5b8c5ac2.so) at /usr/lib/x86_64-linux-gnu/perl/5.26/DynaLoader.pm line 187.
at /usr/local/share/perl/5.26.1/PAR/Heavy.pm line 140.
Compilation failed in require at script/alienomics_v0.3.pl line 27.
BEGIN failed--compilation aborted at script/alienomics_v0.3.pl line 27.

Unable to restart Apache !

LEGE — Fri, 28 Jul 2023 22:28:34 -0500

abc@ubuntu:/var/www/html$ sudo systemctl restart apache2
Job for apache2.service failed because the control process exited with error code.
See "systemctl status apache2.service" and "journalctl -xe" for details.

Do we need any ethical clearance to work in SARS-CoV2 data ?

LEGE — Mon, 10 Apr 2023 01:26:00 -0500

Why bioinformatics is important ?

LEGE — Tue, 07 Mar 2023 13:08:30 -0600

How to resolve samtools index error "Chromosome blocks not continuous" ?

LEGE — Thu, 12 Aug 2021 08:53:42 -0500

samtools index mappedPairs.sorted.bam return the following error ...

[bam_sort_core] merging from 0 files and 2 in-memory blocks...
[E::hts_idx_push] Chromosome blocks not continuous
samtools index: failed to create index for "mappedPairs.sorted.bam"

GLIBC_2.23' not found error with alienomics !

LEGE — Tue, 23 Mar 2021 07:38:33 -0500

(base) lege@Bathymodiolus:~$ ./alienomics_v0.3.1
Can't load '/tmp/par-6a6974656e647261/cache-f3e57c2becbb7e00629c1273cf03dd05ad45721b/5b8c5ac2.so' for module POSIX: /lib/x86_64-linux-gnu/libm.so.6: version `GLIBC_2.23' not found (required by /tmp/par-6a6974656e647261/cache-f3e57c2becbb7e00629c1273cf03dd05ad45721b/5b8c5ac2.so) at /usr/lib/x86_64-linux-gnu/perl/5.26/DynaLoader.pm line 187.
at /usr/local/share/perl/5.26.1/PAR/Heavy.pm line 140.
Compilation failed in require at script/alienomics_v0.3.pl line 28.
BEGIN failed--compilation aborted at script/alienomics_v0.3.pl line 28.

Where is Bio::SeqIO installed in my Linux system ?

LEGE — Wed, 17 Feb 2021 22:11:57 -0600

How to find the location of the module installed

Alienomics "environment is inconsistent" error ?

LEGE — Mon, 15 Feb 2021 23:18:54 -0600

$ conda install -c jnarayan81 alienomics

The environment is inconsistent, please check the package plan carefully
The following packages are causing the inconsistency:

- defaults/linux-64::jupyter==1.0.0=py37_7
- defaults/noarch::pygments==2.5.2=py_0
- defaults/noarch::jupyter_console==6.1.0=py_0
- defaults/linux-64::spyder==4.0.1=py37_0
- defaults/linux-64::bleach==3.1.0=py37_0
- defaults/noarch::pytest-astropy==0.8.0=py_0
- defaults/linux-64::scikit-learn==0.22.1=py37hd81dba3_0
- defaults/linux-64::conda-build==3.18.11=py37_0
- defaults/linux-64::nbconvert==5.6.1=py37_0
- defaults/noarch::jupyterlab_server==1.0.6=py_0
- defaults/noarch::qtconsole==4.6.0=py_1
- defaults/noarch::flask==1.1.1=py_0
- defaults/linux-64::anaconda==2020.02=py37_0
- defaults/noarch::autopep8==1.4.4=py_0
- defaults/linux-64::ipykernel==5.1.4=py37h39e3cac_0
- defaults/linux-64::jsonschema==3.2.0=py37_0
- defaults/linux-64::pytest-arraydiff==0.3=py37h39e3cac_0
- defaults/linux-64::sympy==1.5.1=py37_0
- defaults/linux-64::anaconda-client==1.7.2=py37_0
- defaults/linux-64::pylint==2.4.4=py37_0
- defaults/noarch::conda-verify==3.4.2=py_1
- defaults/noarch::numpydoc==0.9.2=py_0
- defaults/linux-64::ipython==7.12.0=py37h5ca1d4c_0
- defaults/linux-64::astropy==4.0=py37h7b6447c_0
- defaults/linux-64::spyder-kernels==1.8.1=py37_0
- defaults/noarch::backports.functools_lru_cache==1.6.1=py_0
- defaults/linux-64::clyent==1.2.2=py37_1
- defaults/linux-64::pytest-remotedata==0.3.2=py37_0
- defaults/noarch::jinja2==2.11.1=py_0
- defaults/noarch::ipywidgets==7.5.1=py_0
- defaults/linux-64::python-language-server==0.31.7=py37_0
- defaults/noarch::jupyterlab==1.2.6=pyhf63ae98_0
- defaults/linux-64::_ipyw_jlab_nb_ext_conf==0.1.0=py37_0
- defaults/linux-64::matplotlib==3.1.3=py37_0
- defaults/noarch::networkx==2.4=py_0
- defaults/linux-64::flake8==3.7.9=py37_0
- defaults/noarch::prompt_toolkit==3.0.3=py_0
- defaults/linux-64::anaconda-navigator==1.9.12=py37_0
- defaults/noarch::nbformat==5.0.4=py_0
- defaults/noarch::pytest-astropy-header==0.1.2=py_0
- defaults/noarch::joblib==0.14.1=py_0
- defaults/noarch::seaborn==0.10.0=py_0
- defaults/linux-64::distributed==2.11.0=py37_0
- defaults/noarch::pytest-openfiles==0.4.0=py_0
- defaults/linux-64::isort==4.3.21=py37_0
- defaults/linux-64::wheel==0.34.2=py37_0
- defaults/linux-64::bokeh==1.4.0=py37_0
- defaults/linux-64::numba==0.48.0=py37h0573a6f_0
- defaults/linux-64::conda==4.9.0=py37_0
- defaults/noarch::dask==2.11.0=py_0
- defaults/linux-64::nose==1.3.7=py37_2
- defaults/noarch::anaconda-project==0.8.4=py_0
- defaults/linux-64::notebook==6.0.3=py37_0
- defaults/linux-64::widgetsnbextension==3.5.1=py37_0
- defaults/linux-64::matplotlib-base==3.1.3=py37hef1b27d_0
- defaults/noarch::pytest-doctestplus==0.5.0=py_0
- defaults/linux-64::astroid==2.3.3=py37_0
- defaults/linux-64::scikit-image==0.16.2=py37h0573a6f_0