Moamoa Moa → v1.1

This template doesnt respect fasta input.
Also the distinction between db and index base is rather confusing

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[cfljam@pgenome 07.Map_primers]$ head all_primers

10D12F CATCTCCATCGCTATCATCG
10D12R ACATTTCCAGTTGCCTCCAA

10E11F CCAAAGACTCGTCTGCGAAC
10E11R TCGCCAACTTAGACGATTCC

[cfljam@pgenome 07.Map_primers]$ head all_primers

10D12F CATCTCCATCGCTATCATCG
10D12R ACATTTCCAGTTGCCTCCAA

10E11F CCAAAGACTCGTCTGCGAAC
10E11R TCGCCAACTTAGACGATTCC

[cfljam@pgenome 07.Map_primers]$ moa show db L ../06.Target_Bowtie
ebwt_base L ../06.Target_Bowtie/NXD_target
fq_input L .
input L all_primers
input_format L fasta
jobid L Map_primers
title L map primers to targets
[cfljam@pgenome 07.Map_primers]$ moa run Moa:Warning: Removing a stale lockfile
Error: reads file does not look like a FASTQ file
Command: bowtie -S --un all_primers.unmapped.fq --un all_primers.unmapped.fq ../06.Target_Bowtie/NXD_target ./all_primers
[samopen] no @SQ lines in the header. [main_samview] random alignment retrieval only works for indexed BAM files. ï¿ï¿½BC!sr�ed�|�t�ï¿ï¿½BCMoa:Error: Caught a Ruffus error Moa:Error: Exceptions running jobs for 'def moa.backend.ruff.map.localMapExecutor(...
Moa:Error: ...5, in localMapExecutor raise ruffus.JobSignalledBreak JobSignalledBreak:
Moa:Error: While processing: ./all_primers
Moa: Error running run (<1 sec)
Moa:Error: Quitting