I downloaded the samtools-1.2 zip, unzip, and did make: I tried using the reheader command that used to work but am getting the below error. Do I still need the sudo apt-get install of samtools, it would appear that I do. Thank you .
added to path:
Code:
cmccabe/C2F8EFBFF8EFAFB9/LCH pool I 090215/IonXpress_008_150902.bam | sed '/^@PG/d' | samtools reheader - /media/cmccabe/C2F8EFBFF8EFAFB9/LCH pool I 090215/IonXpress_008_150902.bam > /home/cmccabe/Desktop/ngs_analysis/pool1/IonXpress_008_150902_newheader.bam The program 'samtools' is currently not installed. You can install it by typing: sudo apt-get install samtools samtools-1.2: command not found
Code:
echo 'export PATH=$PATH:/home/cmccabe/Desktop/ngs_analysis/samtools-1.2' >> ~/.bashrc
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