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xiaochuanle / NECAT

Nanopore data assembler
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File not exist error. #40

Open gyudae opened 2 years ago

gyudae commented 2 years ago

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 commented 2 years ago

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.