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File not exist error. #40

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gyudae opened this issue Mar 2, 2022 · 1 comment
Open

File not exist error. #40

gyudae opened this issue Mar 2, 2022 · 1 comment

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@gyudae
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gyudae commented Mar 2, 2022

Hello, i have some problem with using this tools...

First i made a config file by using command: necat.pl config config.txt
i only change project, ONT_READ_LIST, GENOME_SIZE, THREADS like this...

PROJECT=necat_assembly
ONT_READ_LIST=read_list.txt
GENOME_SIZE=38000000
THREADS=72

Second, i made read_list.txt file, and write all path of my fastq files like this...

/home/username/necat/barcode01/fastq_runid_3ec0b4bbd370e90075d26f52cfdb0b4ec34e64f9_0_0.fastq
/home/username/necat/barcode01/fastq_runid_3ec0b4bbd370e90075d26f52cfdb0b4ec34e64f9_0_1.fastq
/home/username/necat/barcode01/fastq_runid_3ec0b4bbd370e90075d26f52cfdb0b4ec34e64f9_0_2.fastq
.
.
.

but when i run the command for correct reads($necat.pl correct config.txt),

Smartmatch is experimental at /home/dlrbeo3025/NECAT/Linux-amd64/bin/Plgd/Project.pm line 263.
File not Exist: /home/username/necat/barcode01/fastq_runid_3ec0b4bbd370e90075d26f52cfdb0b4ec34e64f9_0_0.fastq

I got those error...

but when i run
$less /home/username/necat/barcode01/fastq_runid_3ec0b4bbd370e90075d26f52cfdb0b4ec34e64f9_0_0.fastq, i can check my files...

what is the problem,.,...?
i cant figure it out....
please help me.... :(

thanks...

@ChooseelBunsuwansakul
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maybe, it is about how to write path but I fixed this by just copying all fastq files into the bin and change all path names into names of the files. it worked for me.

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