SICKLE无法使用 sickle: command not

可以使用conda 安装sickle

(rna) $ conda install sickle
Retrieving notices: ...working... done
Channels:
 - https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
 - https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/bioconda
 - defaults
Platform: linux-64
Collecting package metadata (repodata.json): done
Solving environment: done

## Package Plan ##
  added / updated specs:
    - sickle
The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    libxslt-1.1.35             |       h4e12654_0         453 KB  defaults
    lxml-4.5.0                 |   py27hcde611f_1         1.5 MB  https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
    sickle-0.7.0               |     pyh9f0ad1d_0          15 KB  https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/bioconda
    ------------------------------------------------------------
                                           Total:         2.0 MB

The following NEW packages will be INSTALLED:

  libxslt            anaconda/pkgs/main/linux-64::libxslt-1.1.35-h4e12654_0 
  lxml               anaconda/cloud/conda-forge/linux-64::lxml-4.5.0-py27hcde611f_1 
  sickle             anaconda/cloud/bioconda/noarch::sickle-0.7.0-pyh9f0ad1d_0 


Proceed ([y]/n)? y


Downloading and Extracting Packages:
                                                                                                                                                                                                                                                   
Preparing transaction: done                                                                                                                                                                                                                        
Verifying transaction: done                                                                                                                                                                                                                        
Executing transaction: done

但是无法使用，也有人有一样的问题
sickle not found though installed. · Issue #58 · najoshi/sickle (github.com)

(rna) $ sickle pe
-bash: sickle: command not found
(rna) $ which sickle
(rna) $ conda list|grep sickle
sickle                    0.7.0              pyh9f0ad1d_0    https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/bioconda

有教程提到应该安装 sickletrim

3. Quality control (sschmeier.com)

(rna) $ conda install sickle-trim
Channels:
 - https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge
 - https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/bioconda
 - defaults
Platform: linux-64
Collecting package metadata (repodata.json): done
Solving environment: done

## Package Plan ##

  added / updated specs:
    - sickle-trim

The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    sickle-trim-1.33           |       he4a0461_9          21 KB  https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/bioconda
    ------------------------------------------------------------
                                           Total:          21 KB

The following NEW packages will be INSTALLED:

  sickle-trim        anaconda/cloud/bioconda/linux-64::sickle-trim-1.33-he4a0461_9 


Proceed ([y]/n)? y


Downloading and Extracting Packages:
                                                                                                                                                                                                                                                   
Preparing transaction: done
Verifying transaction: done
Executing transaction: done
(rna)$ sickle -h

Usage: sickle <command> [options]

Command:
pe      paired-end sequence trimming
se      single-end sequence trimming

--help, display this help and exit
--version, output version information and exit