当你遇到 "fastqc: command not found" 的错误时,可以按照以下步骤进行排查和解决: 确认fastqc软件是否已经安装: 首先,你需要确认fastqc是否已经正确安装在你的系统上。你可以尝试在终端中运行以下命令来检查fastqc是否已安装: bash which fastqc 或者 bash type fastqc 如果这些命令没有返回fastqc的安装路径,那么...
-bash: fastqc: command not found $ fastqc-t3-o $qcdir $fqdir/SRR7722937_S1_L001_R2_001.fastq.gz-bash:fastqc:command not found(cellrangerze)root02:25:02/home/rstudio/data/raw/qc $ mamba install fastqc __ __ __ __/\/\/\/\/\/\/\/\ ███████████████//██...
1. 打开终端,以管理员身份登录Linux系统。 2. 确保系统已经安装了Java Runtime Environment (JRE)。可以使用以下命令检查: “` java -version “` 如果输出信息显示JRE的版本信息,则已经安装;如果没有输出信息或者显示”command not found”,则需要先安装JRE。 3. 在Linux系统上下载FastQC的压缩包。可以访问FastQC...
each one of which will help to identify a different potential type of problem in your data. If no files to process are specified on the command line then the program will start as an interactive graphical application. If files are provided on the command line then the program will run with...
本文介绍了如何使用oozie命令行的方式在yarn上运行spark任务，包括准备环境、上传jar包、配置job.properties...
My bash script get full paths via pipe (stdin) and get exclude patterns by command line arguments. Currently this handles regexp patterns, but I want to rewrite to handles glob patterns only. How can ... Need to get 1st row of a common column entries but excluding row having specific co...
Pass on additional command line arguments through the batch script. Oct 2, 2018 FastQC FastQC is a program designed to spot potential problems in high througput sequencing datasets. It runs a set of analyses on one or more raw sequence files in fastq or bam format and produces a report whic...
The command I used was run nf-core/eager --reads 'EXB015.A1701/*_R{1,2}*fastq.gz' --pairedEnd --fasta '~References/hg19_MT.fasta' -profile standard,conda --max_cpus 4 --max_memory 32G (Sending input files privately) Expected behavior Not to crash and possibly for the conda envir...
on the command line then the program willrun with no user interaction required. In this mode it is suitable for inclusion into a standardised analysis pipeline. The options for the program as as follows: -h --help Print this help file and exit ...
Editing huge fastq files is not trivial. Most editors are not designed to deal with files which are that big, nor can they cope with compressed files. Depending on what the nature of the corruption is in your data there may be a nice command line option to fix it (ie skipping the firs...