Dear All
I have a problem that we can not solved for a while in installing bioawk. I follow the general pipeline to install bioawk on ubuntu server:
- clone from git hub to the Download directory
- make
After that it is where we are stuck:
When I run the command:
mv awk book
I got error awk does not exist! When I install gawk and try mv gawk from /usr/bin to home/arsalan/download/bioawk, it works but when I cp bioawk to usr/local/bin and try to run it if fails and since gawk has already moved from /usr/bin. By typing gawk I got the error it is not installed! and typing bioawk I got error command not found!
Many thanks in advance
3 answers
bioawk now compiles to the executable called bioawk and not awk
it used to compile to awk and some instructions may still refer to that and instruct you to rename it
•
written
by
Istvan Albert
Clone bioawk repo, run make and make bioawk executable
git clone https://github.com/lh3/bioawk.git
cd bioawk
sudo make
sudo chmod +x bioawk
./bioawk
Anaconda/Miniconda mignt reduce this installation process.
conda install -c bioconda bioawk
Log in to answer this question.
-
Tool: Collect dispersed executable files and run them by using bingo.
written by dwpeng •
-
Installation error of hmmer
written by microorganism_001 •
-
Installation of Bismark
written by appropiate •
-
GFF to BED conversion
written by Maliha •
-
Assembly stats
written by fuad.fsu •
-
Help installing Bioawk
written by 01de •
-
Pindel installation failing due to htslib
written by cdastmalchi •
-
stringtie2 error : ./samtools-0.1.18/bgzf.h:29:10: fatal error: zlib.h: No such file or directory
written by kousi31 •
-
samtools installation errors
written by saj98
-
Installing Trinity, Error with Samtools
written by nikelle.petrillo
cross-posted on my professional email :-[
mine as well - I wish the OP put in as much effort towards fixing this very simple error as they did to track down our emails
When i click sudo make it shows make: yacc: Command not found make: * [Makefile:50: ytab.o] Error 127
Please do not use the answer field for questions, use
ADD REPLY.