如何在 Linux 中运行 fastq screen
我是该领域的新手，正在尝试运行 fastq screen。我已经下载了 fastq screen 所需的所有包。
当我尝试运行它时，我收到此错误。
Reading configuration from '/home/ahmad/FastQ-Screen-0.15.2/fastq_screen.conf'
Aligner (--aligner) not specified. Did not find Bowtie/Bowtie2/BWA paths and/or index files
Please check: you have provided the full path to the aligner INCLUDING the executable filename
Please check: the specified genome indices comprises the full path AND the basename of the index files
See documentation for further details
Please adjust configuration.
我打开 fastq_screen.conf 并将 Bowtie2 的路径调整为 /usr/bin/bowtie2 /usr/share/man/man1/bowtie2.1.gz
基因组参考的路径 /home/ahmad/FastQ_Screen_Genomes/Human
但是仍然得到相同的错误。有什么帮助吗？
I'm new to the feild and trying to run fastq screen. I have downloads all required packeges for fastq screen.
when I try to run it i get this error.
Reading configuration from '/home/ahmad/FastQ-Screen-0.15.2/fastq_screen.conf'
Aligner (--aligner) not specified. Did not find Bowtie/Bowtie2/BWA paths and/or index files
Please check: you have provided the full path to the aligner INCLUDING the executable filename
Please check: the specified genome indices comprises the full path AND the basename of the index files
See documentation for further details
Please adjust configuration.
I opened the fastq_screen.conf and I adjust the path for bowtie2 to be at /usr/bin/bowtie2 /usr/share/man/man1/bowtie2.1.gz
the path for genome ref /home/ahmad/FastQ_Screen_Genomes/Human
but still get the same error. any help please ??
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最好的方法是检查您的
bowtie2版本：它会自动向您显示您想要的路径，该路径不以
.gz结尾。另外，当您使用时：
FastQ_Screen_Genomes文件夹中的文件fastq_screen.conf将包含基因组文件的路径，因此您只需更改 Bowtie2 路径，将该文件复制到您的fastq-screen主文件夹。The best way is to check your
bowtie2version:And it automatically shows you the pathway you want, which does not end in
.gz.Also when you use:
The file
fastq_screen.confin theFastQ_Screen_Genomesfolder will have the pathway to your genome files so you only need to change the bowtie2 pathway, copy that file into yourfastq-screenmain folder.