alexdobin
commented
2 years ago Hi Darawan,
the STAR executable that you compiled will be in the source/ directory, so you need: export PATH=/tools/STAR/STAR-2.7.10a/source/:$PATH
Cheers Alex
Open Drinchai opened 2 years ago
alexdobin
commented
2 years ago Hi Darawan,
the STAR executable that you compiled will be in the source/ directory, so you need: export PATH=/tools/STAR/STAR-2.7.10a/source/:$PATH
Cheers Alex
ppxinyi
commented
2 months ago export PATH=/scratch/chadbren_root/chadbren99/ppxinyi/STAR/source/Linux_x86_64:$PATH
[ppxinyi@gl-login1 arriba_v2.4.0]$ source ~/.bashrc
[ppxinyi@gl-login1 arriba_v2.4.0]$ rm -rf STAR_index_hs37d5viral_GENCODE19
[ppxinyi@gl-login1 arriba_v2.4.0]$ ./download_references.sh hs37d5viral+GENCODE19
Downloading assembly: http://ftp.1000genomes.ebi.ac.uk/vol1/ftp/technical/reference/phase2_reference_assembly_sequence/hs37d5.fa.gz
Appending RefSeq viral genomes
Downloading annotation: http://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_19/gencode.v19.annotation.gtf.gz
STAR: /lib64/libm.so.6: version GLIBC_2.29' not found (required by STAR) STAR: /lib64/libstdc++.so.6: versionGLIBCXX_3.4.26' not found (required by STAR)
I meet similar problem, do you have some solving method?
Hello,
I did install " STAR-2.7.10a" on HPC By using this script;
wget https://github.com/alexdobin/STAR/archive/2.7.10a.tar.gz tar -xzf 2.7.10a.tar.gz cd STAR-2.7.10a
Compile under Linux
Compile
cd STAR/source make STAR
Then I would like to run STAR on R1.fastq.gz and R2.fastq.gz ** export PATH=/ tools/STAR/STAR-2.7.10a/bin/Linux_x86_64:$PATH
STAR --genomeDir /ref_genome \ --runThreadN 6 \ --readFilesIn FASTQ/R1.fastq.gz FASTQ/R2.fastq.gz \ --readFilesCommand zcat \ --outFileNamePrefix /STAR \ --outSAMtype BAM SortedByCoordinate \ --outSAMunmapped Within \ --outSAMattributes Standard ** But I get error message showed as below;
STAR --genomeDir /rugpfs/fs0/casa_lab/scratch/drinchai/ref_genome \
Then I installed `GLIBC_2.29' and add path to this package as well but I am still not able to run STAR. Could you please advise?
Thank you! Darawan