Error while installng redundans

[RxLoutre]

Hello !

I've tried ton install the easy way redundans. I'veperformed the following steps :

git clone --recursive https://github.com/lpryszcz/redundans.git
cd redundans && bin/.compile.sh

As it is written that every dependencies is already included, I did not expected the following error I got while trying to run :

./redundans.py -v -i /media/loutre/SUZUKII/illumina_reads/*.fastq -l '/media/loutre/SUZUKII/fasta_reads_pacbio/filtered_subreads_clean.fasta' -f '/media/loutre/SUZUKII/assembly/Drosophila-suzukii-p.fasta' -t 30 -o '/media/loutre/SUZUKII/redundans'

Loutre:~/redundans$ ./redundans.py -v -i /media/loutre/SUZUKII/illumina_reads/*.fastq -l '/media/loutre/SUZUKII/fasta_reads_pacbio/filtered_subreads_clean.fasta' -f '/media/loutre/SUZUKII/assembly/Drosophila-suzukii-p.fasta' -t 30 -o '/media/loutre/SUZUKII/redundans'
Options: Namespace(fasta='/media/loutre/SUZUKII/assembly/Drosophila-suzukii-p.fasta', fastq=['/media/loutre/SUZUKII/illumina_reads/SRR1002946_1.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR1002946_1_trimmed.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR1002946_2.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR1002946_2_trimmed.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942797_1.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942797_2.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942798_1.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942798_2.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942799_1.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942799_2.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942800_1.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942800_2.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942801_1.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942801_2.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942802_1.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942802_2.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942803_1.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942803_2.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942804_1.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942804_2.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942805_1.fastq', '/media/loutre/SUZUKII/illumina_reads/SRR942805_2.fastq'], identity=0.51, iters=2, joins=5, limit=0.2, linkratio=0.7, log=<open file '<stderr>', mode 'w' at 0x7f73392991e0>, longreads=['/media/loutre/SUZUKII/fasta_reads_pacbio/filtered_subreads_clean.fasta'], mapq=10, minLength=200, nocleaning=True, nogapclosing=True, norearrangements=False, noreduction=True, noscaffolding=True, outdir='/media/loutre/SUZUKII/redundans', overlap=0.8, reference='', resume=False, threads=30, verbose=True)
[ERROR] lastdb: not found

[ERROR] lastal: not found

When I'm looking in redundans installation, I can see the tool Last, so I guess it was downloaded, but maybe not compiled correctly.

Did I made a mistake or forgot something in the process ?

Cheers,

Roxane

[lpryszcz]

Hi, can you try with the latest version? It should be solved.

git clone --recursive https://github.com/lpryszcz/redundans.git
cd redundans && bin/.compile.sh