错了 multiqc 少了l
$ conda install -y mutiqc
Collecting package metadata (current_repodata.json): done
Solving environment: failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): done
Solving environment: failed with initial frozen solve. Retrying with flexible solve.
PackagesNotFoundError: The following packages are not available from current channels:
- mutiqc
Current channels:
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/bioconda/linux-64
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/bioconda/noarch
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge/linux-64
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge/noarch
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/pkgs/free/linux-64
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/pkgs/free/noarch
- https://repo.anaconda.com/pkgs/main/linux-64
- https://repo.anaconda.com/pkgs/main/noarch
- https://repo.anaconda.com/pkgs/r/linux-64
- https://repo.anaconda.com/pkgs/r/noarch
To search for alternate channels that may provide the conda package you're
looking for, navigate to
https://anaconda.org
and use the search bar at the top of the page.
(rnaseq) root 11:31:28 ~
$ mutiqc
-bash: mutiqc: command not found
(rnaseq) root 11:31:42 ~
$ multiqc
-bash: multiqc: command not found
(rnaseq) root 11:31:54 ~
$ multiqc --help
-bash: multiqc: command not found
(rnaseq) root 11:32:05 ~
$ multiqc -h
-bash: multiqc: command not found
(rnaseq) root 11:32:13 ~
$
重来
$ conda install -y multiqc
Collecting package metadata (current_repodata.json): done
Solving environment: done
==> WARNING: A newer version of conda exists. <==
current version: 4.9.2
latest version: 4.10.1
Please update conda by running
$ conda update -n base -c defaults conda
## Package Plan ##
environment location: /root/miniconda3/envs/rnaseq
added / updated specs:
- multiqc
The following packages will be downloaded:
package | build
---------------------------|-----------------
brotlipy-0.7.0 |py39h3811e60_1001 341 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
cffi-1.14.5 | py39he32792d_0 227 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
chardet-4.0.0 | py39hf3d152e_1 205 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
click-8.0.1 | py39hf3d152e_0 146 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
colorama-0.4.4 | pyh9f0ad1d_0 18 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
coloredlogs-15.0 | py39hf3d152e_0 62 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
colormath-3.0.0 | py_2 34 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
commonmark-0.9.1 | py_0 46 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
cryptography-3.4.7 | py39hbca0aa6_0 1.1 MB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
cycler-0.10.0 | py_2 9 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
decorator-4.4.2 | py_0 11 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
future-0.18.2 | py39hf3d152e_3 718 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
humanfriendly-9.1 | py39hf3d152e_0 118 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
idna-2.10 | pyh9f0ad1d_0 52 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
importlib-metadata-4.3.1 | py39hf3d152e_0 30 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
jinja2-3.0.1 | pyhd8ed1ab_0 99 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
kiwisolver-1.3.1 | py39h1a9c180_1 80 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
libblas-3.9.0 | 9_openblas 11 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
libcblas-3.9.0 | 9_openblas 11 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
libgfortran-ng-9.3.0 | hff62375_19 22 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
libgfortran5-9.3.0 | hff62375_19 2.0 MB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
liblapack-3.9.0 | 9_openblas 11 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
libopenblas-0.3.15 |pthreads_h8fe5266_1 9.2 MB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
lzstring-1.0.4 | py_1001 6 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
markdown-3.3.4 | pyhd8ed1ab_0 67 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
markupsafe-2.0.1 | py39h3811e60_0 22 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
matplotlib-base-3.4.2 | py39h2fa2bec_0 7.2 MB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
multiqc-1.10.1 | pyhdfd78af_1 898 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/bioconda
networkx-2.5.1 | pyhd8ed1ab_0 1.2 MB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
numpy-1.20.3 | py39hdbf815f_1 5.8 MB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
olefile-0.46 | pyh9f0ad1d_1 32 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
openjpeg-2.4.0 | hb52868f_1 444 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
pillow-8.2.0 | py39hf95b381_1 690 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
pycparser-2.20 | pyh9f0ad1d_2 94 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
pygments-2.9.0 | pyhd8ed1ab_0 754 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
pyopenssl-20.0.1 | pyhd8ed1ab_0 48 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
pyparsing-2.4.7 | pyh9f0ad1d_0 60 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
pysocks-1.7.1 | py39hf3d152e_3 28 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
python-dateutil-2.8.1 | py_0 220 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
pyyaml-5.4.1 | py39h3811e60_0 193 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
requests-2.25.1 | pyhd3deb0d_0 51 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
rich-10.2.2 | py39hf3d152e_0 337 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
simplejson-3.17.2 | py39h3811e60_2 103 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
six-1.16.0 | pyh6c4a22f_0 14 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
spectra-0.0.11 | py_1 19 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
tornado-6.1 | py39h3811e60_1 646 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
typing_extensions-3.7.4.3 | py_0 25 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
urllib3-1.26.5 | pyhd8ed1ab_0 99 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
yaml-0.2.5 | h516909a_0 82 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
zipp-3.4.1 | pyhd8ed1ab_0 11 KB https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
------------------------------------------------------------
Total: 33.5 MB
The following NEW packages will be INSTALLED:
brotlipy anaconda/cloud/conda-forge/linux-64::brotlipy-0.7.0-py39h3811e60_1001
cffi anaconda/cloud/conda-forge/linux-64::cffi-1.14.5-py39he32792d_0
chardet anaconda/cloud/conda-forge/linux-64::chardet-4.0.0-py39hf3d152e_1
click anaconda/cloud/conda-forge/linux-64::click-8.0.1-py39hf3d152e_0
colorama anaconda/cloud/conda-forge/noarch::colorama-0.4.4-pyh9f0ad1d_0
coloredlogs anaconda/cloud/conda-forge/linux-64::coloredlogs-15.0-py39hf3d152e_0
colormath anaconda/cloud/conda-forge/noarch::colormath-3.0.0-py_2
commonmark anaconda/cloud/conda-forge/noarch::commonmark-0.9.1-py_0
cryptography anaconda/cloud/conda-forge/linux-64::cryptography-3.4.7-py39hbca0aa6_0
cycler anaconda/cloud/conda-forge/noarch::cycler-0.10.0-py_2
decorator anaconda/cloud/conda-forge/noarch::decorator-4.4.2-py_0
future anaconda/cloud/conda-forge/linux-64::future-0.18.2-py39hf3d152e_3
humanfriendly anaconda/cloud/conda-forge/linux-64::humanfriendly-9.1-py39hf3d152e_0
idna anaconda/cloud/conda-forge/noarch::idna-2.10-pyh9f0ad1d_0
importlib-metadata anaconda/cloud/conda-forge/linux-64::importlib-metadata-4.3.1-py39hf3d152e_0
jinja2 anaconda/cloud/conda-forge/noarch::jinja2-3.0.1-pyhd8ed1ab_0
kiwisolver anaconda/cloud/conda-forge/linux-64::kiwisolver-1.3.1-py39h1a9c180_1
libblas anaconda/cloud/conda-forge/linux-64::libblas-3.9.0-9_openblas
libcblas anaconda/cloud/conda-forge/linux-64::libcblas-3.9.0-9_openblas
libgfortran-ng anaconda/cloud/conda-forge/linux-64::libgfortran-ng-9.3.0-hff62375_19
libgfortran5 anaconda/cloud/conda-forge/linux-64::libgfortran5-9.3.0-hff62375_19
liblapack anaconda/cloud/conda-forge/linux-64::liblapack-3.9.0-9_openblas
libopenblas anaconda/cloud/conda-forge/linux-64::libopenblas-0.3.15-pthreads_h8fe5266_1
lzstring anaconda/cloud/conda-forge/noarch::lzstring-1.0.4-py_1001
markdown anaconda/cloud/conda-forge/noarch::markdown-3.3.4-pyhd8ed1ab_0
markupsafe anaconda/cloud/conda-forge/linux-64::markupsafe-2.0.1-py39h3811e60_0
matplotlib-base anaconda/cloud/conda-forge/linux-64::matplotlib-base-3.4.2-py39h2fa2bec_0
multiqc anaconda/cloud/bioconda/noarch::multiqc-1.10.1-pyhdfd78af_1
networkx anaconda/cloud/conda-forge/noarch::networkx-2.5.1-pyhd8ed1ab_0
numpy anaconda/cloud/conda-forge/linux-64::numpy-1.20.3-py39hdbf815f_1
olefile anaconda/cloud/conda-forge/noarch::olefile-0.46-pyh9f0ad1d_1
openjpeg anaconda/cloud/conda-forge/linux-64::openjpeg-2.4.0-hb52868f_1
pillow anaconda/cloud/conda-forge/linux-64::pillow-8.2.0-py39hf95b381_1
pycparser anaconda/cloud/conda-forge/noarch::pycparser-2.20-pyh9f0ad1d_2
pygments anaconda/cloud/conda-forge/noarch::pygments-2.9.0-pyhd8ed1ab_0
pyopenssl anaconda/cloud/conda-forge/noarch::pyopenssl-20.0.1-pyhd8ed1ab_0
pyparsing anaconda/cloud/conda-forge/noarch::pyparsing-2.4.7-pyh9f0ad1d_0
pysocks anaconda/cloud/conda-forge/linux-64::pysocks-1.7.1-py39hf3d152e_3
python-dateutil anaconda/cloud/conda-forge/noarch::python-dateutil-2.8.1-py_0
pyyaml anaconda/cloud/conda-forge/linux-64::pyyaml-5.4.1-py39h3811e60_0
requests anaconda/cloud/conda-forge/noarch::requests-2.25.1-pyhd3deb0d_0
rich anaconda/cloud/conda-forge/linux-64::rich-10.2.2-py39hf3d152e_0
simplejson anaconda/cloud/conda-forge/linux-64::simplejson-3.17.2-py39h3811e60_2
six anaconda/cloud/conda-forge/noarch::six-1.16.0-pyh6c4a22f_0
spectra anaconda/cloud/conda-forge/noarch::spectra-0.0.11-py_1
tornado anaconda/cloud/conda-forge/linux-64::tornado-6.1-py39h3811e60_1
typing_extensions anaconda/cloud/conda-forge/noarch::typing_extensions-3.7.4.3-py_0
urllib3 anaconda/cloud/conda-forge/noarch::urllib3-1.26.5-pyhd8ed1ab_0
yaml anaconda/cloud/conda-forge/linux-64::yaml-0.2.5-h516909a_0
zipp anaconda/cloud/conda-forge/noarch::zipp-3.4.1-pyhd8ed1ab_0
Downloading and Extracting Packages
numpy-1.20.3 | 5.8 MB | ######################################## | 100%
openjpeg-2.4.0 | 444 KB | ######################################## | 100%
rich-10.2.2 | 337 KB | ######################################## | 100%
colorama-0.4.4 | 18 KB | ######################################## | 100%
cffi-1.14.5 | 227 KB | ######################################## | 100%
pyyaml-5.4.1 | 193 KB | ######################################## | 100%
olefile-0.46 | 32 KB | ######################################## | 100%
markdown-3.3.4 | 67 KB | ######################################## | 100%
colormath-3.0.0 | 34 KB | ######################################## | 100%
networkx-2.5.1 | 1.2 MB | ######################################## | 100%
pyparsing-2.4.7 | 60 KB | ######################################## | 100%
yaml-0.2.5 | 82 KB | ######################################## | 100%
kiwisolver-1.3.1 | 80 KB | ######################################## | 100%
future-0.18.2 | 718 KB | ######################################## | 100%
markupsafe-2.0.1 | 22 KB | ######################################## | 100%
pycparser-2.20 | 94 KB | ######################################## | 100%
jinja2-3.0.1 | 99 KB | ######################################## | 100%
python-dateutil-2.8. | 220 KB | ######################################## | 100%
matplotlib-base-3.4. | 7.2 MB | ######################################## | 100%
simplejson-3.17.2 | 103 KB | ######################################## | 100%
urllib3-1.26.5 | 99 KB | ######################################## | 100%
decorator-4.4.2 | 11 KB | ######################################## | 100%
six-1.16.0 | 14 KB | ######################################## | 100%
zipp-3.4.1 | 11 KB | ######################################## | 100%
libcblas-3.9.0 | 11 KB | ######################################## | 100%
liblapack-3.9.0 | 11 KB | ######################################## | 100%
brotlipy-0.7.0 | 341 KB | ######################################## | 100%
cryptography-3.4.7 | 1.1 MB | ######################################## | 100%
libopenblas-0.3.15 | 9.2 MB | ######################################## | 100%
libgfortran5-9.3.0 | 2.0 MB | ######################################## | 100%
idna-2.10 | 52 KB | ######################################## | 100%
tornado-6.1 | 646 KB | ######################################## | 100%
spectra-0.0.11 | 19 KB | ######################################## | 100%
libblas-3.9.0 | 11 KB | ######################################## | 100%
importlib-metadata-4 | 30 KB | ######################################## | 100%
typing_extensions-3. | 25 KB | ######################################## | 100%
coloredlogs-15.0 | 62 KB | ######################################## | 100%
pyopenssl-20.0.1 | 48 KB | ######################################## | 100%
requests-2.25.1 | 51 KB | ######################################## | 100%
chardet-4.0.0 | 205 KB | ######################################## | 100%
pygments-2.9.0 | 754 KB | ######################################## | 100%
multiqc-1.10.1 | 898 KB | ######################################## | 100%
cycler-0.10.0 | 9 KB | ######################################## | 100%
commonmark-0.9.1 | 46 KB | ######################################## | 100%
lzstring-1.0.4 | 6 KB | ######################################## | 100%
pysocks-1.7.1 | 28 KB | ######################################## | 100%
humanfriendly-9.1 | 118 KB | ######################################## | 100%
libgfortran-ng-9.3.0 | 22 KB | ######################################## | 100%
click-8.0.1 | 146 KB | ######################################## | 100%
pillow-8.2.0 | 690 KB | ######################################## | 100%
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
(rnaseq) root 11:36:08 ~
$
查看
$ multiqc
Usage: multiqc [OPTIONS]
Error: Missing argument ''.
This is MultiQC v1.10.1
For more help, run 'multiqc --help' or visit http://multiqc.info
(rnaseq) root 11:37:01 ~
$ multiqc --help
Usage: multiqc [OPTIONS]
MultiQC aggregates results from bioinformatics analyses across many samples
into a single report.
It searches a given directory for analysis logs and compiles a HTML report.
It's a general use tool, perfect for summarising the output from numerous
bioinformatics tools.
To run, supply with one or more directory to scan for analysis results. To
run here, use 'multiqc .'
See http://multiqc.info for more details.
Author: Phil Ewels (http://phil.ewels.co.uk)
Options:
-f, --force Overwrite any existing reports
-d, --dirs Prepend directory to sample names
-dd, --dirs-depth INTEGER Prepend [INT] directories to sample names.
Negative number to take from start of path.
-s, --fullnames Do not clean the sample names (leave as full
file name)
-i, --title TEXT Report title. Printed as page header, used
for filename if not otherwise specified.
-b, --comment TEXT Custom comment, will be printed at the top
of the report.
-n, --filename TEXT Report filename. Use 'stdout' to print to
standard out.
-o, --outdir TEXT Create report in the specified output
directory.
-t, --template [default|default_dev|gathered|geo|sections|simple]
Report template to use.
--tag TEXT Use only modules which tagged with this
keyword, eg. RNA
--view-tags, --view_tags View the available tags and which modules
they load
-x, --ignore TEXT Ignore analysis files (glob expression)
--ignore-samples TEXT Ignore sample names (glob expression)
--ignore-symlinks Ignore symlinked directories and files
--sample-names PATH File containing alternative sample names
--sample-filters PATH File containing show/hide patterns for the
report
-l, --file-list Supply a file containing a list of file
paths to be searched, one per row
-e, --exclude [module name] Do not use this module. Can specify multiple
times.
-m, --module [module name] Use only this module. Can specify multiple
times.
--data-dir Force the parsed data directory to be
created.
--no-data-dir Prevent the parsed data directory from being
created.
-k, --data-format [tsv|json|yaml]
Output parsed data in a different format.
Default: tsv
-z, --zip-data-dir Compress the data directory.
-p, --export Export plots as static images in addition to
the report
-fp, --flat Use only flat plots (static images)
-ip, --interactive Use only interactive plots (HighCharts
Javascript)
--lint Use strict linting (validation) to help code
development
--pdf Creates PDF report with 'simple' template.
Requires Pandoc to be installed.
--no-megaqc-upload Don't upload generated report to MegaQC,
even if MegaQC options are found
-c, --config PATH Specific config file to load, after those in
MultiQC dir / home dir / working dir.
--cl-config, --cl_config TEXT Specify MultiQC config YAML on the command
line
-v, --verbose Increase output verbosity. [x>=0]
-q, --quiet Only show log warnings
--profile-runtime Add analysis of how long MultiQC takes to
run to the report
--no-ansi Disable coloured log output
--version Show the version and exit.
-h, --help Show this message and exit.
(rnaseq) root 11:37:12 ~
