<div dir="ltr"><div dir="ltr"><div dir="ltr"><div><font color="#000000"><span style="caret-color: rgb(0, 0, 0);">Dear maker support team </span></font></div><div><font color="#000000">I need your help to troubleshoot this error. I don't know what I'm doing wrong, this is my first time annotating a genome. I have gone through almost three maker tutorials online but it's like the annotation doesn't generate the datastore folder and I don't know why because I have provided all the input files. I am running this analysis on the cluster platform. Below I have pasted the slurm script and the error message. Any suggestions and help would be highly appropriated. </font></div><div><span style="background-color:rgb(255,255,255)"><font color="#000000"></font></span></div><div dir="ltr"><span style="color:rgb(0,0,0)"><br></span></div><div dir="ltr"><span style="color:rgb(0,0,0)">Slurm script </span><br></div><div dir="ltr"><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">#!/bin/bash</font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">#SBATCH --account=austin</font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><font style="background-color:rgb(255,255,255)" color="#000000" face="monospace"><span style="font-variant-ligatures:no-common-ligatures">#SBATCH --job-name=</span><span style="font-variant-ligatures:no-common-ligatures">maker</span></font></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">#SBATCH --mail-type=ALL</font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">#SBATCH --mail-user=<a href="mailto:charlesgumbi@ufl.edu">charlesgumbi@ufl.edu</a></font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">#SBATCH --mem=30gb</font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">#SBATCH --ntasks=1</font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">#SBATCH --cpus-per-task2</font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">#SBATCH --time=48:00:00</font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><font style="background-color:rgb(255,255,255)" color="#000000" face="monospace"><span style="font-variant-ligatures:no-common-ligatures">#SBATCH --output=</span><span style="font-variant-ligatures:no-common-ligatures">maker</span><span style="font-variant-ligatures:no-common-ligatures">%j.out</span></font></p><p style="margin:0px;font-stretch:normal;line-height:normal"><font style="background-color:rgb(255,255,255)" color="#000000" face="monospace"><span style="font-variant-ligatures:no-common-ligatures">#SBATCH --error=</span><span style="font-variant-ligatures:no-common-ligatures">maker</span><span style="font-variant-ligatures:no-common-ligatures">%j.err</span></font></p><p style="margin:0px;font-stretch:normal;line-height:normal"><font style="background-color:rgb(255,255,255)" color="#000000" face="monospace"><span style="font-variant-ligatures:no-common-ligatures">date;hostname;</span><span style="font-variant-ligatures:no-common-ligatures">pwd</span></font></p><p style="margin:0px;font-stretch:normal;line-height:normal;min-height:13px"><font style="background-color:rgb(255,255,255)" color="#000000" face="monospace"><span style="font-variant-ligatures:no-common-ligatures"></span><br></font></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">#loading modules</font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">module purge</font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><font style="background-color:rgb(255,255,255)" color="#000000" face="monospace"><span style="font-variant-ligatures:no-common-ligatures">module load </span><span style="font-variant-ligatures:no-common-ligatures">maker</span><span style="font-variant-ligatures:no-common-ligatures">/3.01.03</span></font></p><p style="margin:0px;font-stretch:normal;line-height:normal;min-height:13px"><span style="color:rgb(0,0,0);font-variant-ligatures:no-common-ligatures"><font face="monospace"><br></font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal;min-height:13px"><span style="color:rgb(0,0,0);font-variant-ligatures:no-common-ligatures"><font face="monospace">#runing maker </font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal;min-height:13px"><font face="monospace"><span style="color:rgb(0,0,0);font-variant-ligatures:no-common-ligatures">maker</span><span style="color:rgb(0,0,0);font-variant-ligatures:no-common-ligatures"> </span><span style="color:rgb(0,0,0);font-variant-ligatures:no-common-ligatures">-base</span><span style="color:rgb(0,0,0);font-variant-ligatures:no-common-ligatures"> natalensis </span><span style="color:rgb(0,0,0);font-variant-ligatures:no-common-ligatures">-fix_nucleotides</span><span style="color:rgb(0,0,0);font-variant-ligatures:no-common-ligatures"> </span><span style="color:rgb(0,0,0);font-variant-ligatures:no-common-ligatures">-dsindex</span><span style="color:rgb(0,0,0);font-variant-ligatures:no-common-ligatures"> maker_bopts.ctl maker_exe.ctl maker_opts.ctl</span><br></font></p><p style="margin:0px;font-stretch:normal;line-height:normal;min-height:13px"><font style="background-color:rgb(255,255,255)" color="#000000" face="monospace"><span style="font-variant-ligatures:no-common-ligatures"></span><br></font></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">#making gff3 files</font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><font style="background-color:rgb(255,255,255)" color="#000000" face="monospace"><span style="font-variant-ligatures:no-common-ligatures">cd</span><span style="font-variant-ligatures:no-common-ligatures"> natalensis.maker.output</span></font></p><p style="margin:0px;font-stretch:normal;line-height:normal"><font style="background-color:rgb(255,255,255)" color="#000000" face="monospace"><span style="font-variant-ligatures:no-common-ligatures">gff3_merge </span><span style="font-variant-ligatures:no-common-ligatures">-d</span><span style="font-variant-ligatures:no-common-ligatures"> natalensis.maker.output/natalensis_master_datastore_index.log</span></font></p><p style="margin:0px;font-stretch:normal;line-height:normal"><font style="background-color:rgb(255,255,255)" color="#000000" face="monospace"><span style="font-variant-ligatures:no-common-ligatures">fasta_merge </span><span style="font-variant-ligatures:no-common-ligatures">-d</span><span style="font-variant-ligatures:no-common-ligatures"> natalensis.maker.output/natalensis_master_datastore_index.log. </span></font></p><p style="margin:0px;font-stretch:normal;line-height:normal;color:rgb(33,255,6)"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(238,238,238)"><font face="arial, sans-serif"><br></font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(238,238,238)"><font face="arial, sans-serif" color="#000000"><br></font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="color:rgb(0,0,0);font-family:arial,sans-serif;background-color:rgb(238,238,238)">Error file</span><br></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="color:rgb(0,0,0);font-family:monospace;font-size:11px">Possible precedence issue with control flow operator at /apps/maker/3.01.03/lib/site_perl/5.26.2/Bio/DB/IndexedBase.pm line 805.</span><br></p><p style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">STATUS: Parsing control files...</font></span></p><p style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">STATUS: Processing and indexing input FASTA files...</font></span></p><p style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">STATUS: Setting up database for any GFF3 input...</font></span></p><p style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">A data structure will be created for you at:</font></span></p><p style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">/blue/austin/bonginkosi.gumbi/mastomys/genome/wtdg/annotation/maker/natalensis.maker.output/natalensis_datastore</font></span></p><p style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal;min-height:13px"><span style="background-color:rgb(255,255,255)"><font color="#000000" face="monospace"><span style="font-variant-ligatures:no-common-ligatures"></span><br></font></span></p><p style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">To access files for individual sequences use the datastore index:</font></span></p><p style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">/blue/austin/bonginkosi.gumbi/mastomys/genome/wtdg/annotation/maker/natalensis.maker.output/natalensis_master_datastore_index.log</font></span></p><p style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal;min-height:13px"><span style="background-color:rgb(255,255,255)"><font color="#000000" face="monospace"><span style="font-variant-ligatures:no-common-ligatures"></span><br></font></span></p><p style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">ERROR: The file 'natalensis.maker.output/natalensis_master_datastore_index.log' does not exist</font></span></p><p style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">ERROR: The file 'natalensis.maker.output/natalensis_master_datastore_index.log' does not exist</font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">
</font></span></p><p style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000" face="monospace">maker61784163.err (END)</font></span></p><div><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font color="#000000"><br></font></span></div><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font face="arial, sans-serif" color="#000000"><br></font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font face="arial, sans-serif" color="#000000">Humble regards </font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(255,255,255)"><font face="arial, sans-serif" color="#000000">charles </font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(238,238,238)"><font face="arial, sans-serif" color="#000000"><br></font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(238,238,238)"><font face="arial, sans-serif" color="#000000"><br></font></span></p><p style="margin:0px;font-stretch:normal;line-height:normal"><span style="font-variant-ligatures:no-common-ligatures;background-color:rgb(243,243,243)"><font face="arial, sans-serif" color="#000000"><br></font></span></p><p style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(33,255,6);background-color:rgb(0,0,0)"><span style="font-variant-ligatures:no-common-ligatures"><br></span></p></div></div></div></div>