Bash script not working in Ubuntu in Windows 10

Is Ubuntu different from Linux on a Mac? Sorry if this is a basic question...I am new to this. I am trying to run a bash script that creates a .sh script out of some FASTQ files. This works in the terminal on a Mac OS. I am trying to run it on my Windows laptop and it ignores my escaping of #s and just states that several commands are not found. I have tried using dos2unix and double checked with cat -A file.sh but it hasn't helped.

The code I am trying to run takes all fastq files in a folder and creates a .sh file for SLURM job submissions using their file name (needed for my university's computer cluster, and I need to make 100+ job scripts). So the Mac OS version is as follows:

for FILE in *fastq;    #change file type when needed (e.g., fasta, fastq, fastq.gz)do echo -e \\#\!/bin/bash \\\n\#SBATCH --partition=nonpre  \# Partition \(job queue\) \\\n\#SBATCH --requeue                 \# Return job to the queue if preempted \\\n\#SBATCH --job-name=samples      \# Assign a short name to your job \\\n\#SBATCH --nodes=1                 \# Number of nodes you require \\\n\#SBATCH --ntasks=1                \# Total \# of tasks across all nodes \\\n\#SBATCH --cpus-per-task=64        \# Cores per task \(\>1 if multithread tasks\) \\\n\#SBATCH --mem=180000              \# Real memory \(RAM\) required \(MB\) \\\n\#SBATCH --time=72:00:00           \# Total run time limit \(HH:MM:SS\) \\\n\#SBATCH --output=slurm.%N.${FILE}.out  \# STDOUT output file \\\n\#SBATCH --error=slurm.%N.${FILE}.err   \# STDERR output file \(optional\) \\\n \\\n\#ADD WHATEVER CODE YOU WANT HERE AS YOUR SLURM JOB SUBMISSION \\\n \\\nsacct --format=JobID,JobName,NTasks,NNodes,NCPUS,MaxRSS,AveRSS,AveCPU,Elapsed,ExitCode -j \$SLURM_JOBID \#this will get job run stats from SLURM\; use these to help designate memory of future submissions \> ${FILE}.sh; done

When running this on Windows, I get:

Slurm_Generator.sh: line 13: #!/bin/bash: No such file or directorySlurm_Generator.sh: line 14: \n#SBATCH: command not foundSlurm_Generator.sh: line 16: \n#SBATCH: command not foundSlurm_Generator.sh: line 18: \n#SBATCH: command not foundSlurm_Generator.sh: line 20: \n#SBATCH: command not foundSlurm_Generator.sh: line 22: \n#SBATCH: command not foundSlurm_Generator.sh: line 24: \n#SBATCH: command not foundSlurm_Generator.sh: line 26: \n#SBATCH: command not foundSlurm_Generator.sh: line 28: \n#SBATCH: command not foundSlurm_Generator.sh: line 30: \n#SBATCH: command not foundSlurm_Generator.sh: line 32: \n#SBATCH: command not foundSlurm_Generator.sh: line 35: \n: command not foundSlurm_Generator.sh: line 36: \n#ADD: command not foundSlurm_Generator.sh: line 39: \n: command not foundSlurm_Generator.sh: line 40: \nsacct: command not found

Any help would be appreciated, and some explanation on what the difference is between Ubuntu on Windows vs. the Terminal on Mac. I've tried researching this but I keep finding suggested code with no explanation or it isn't particularly my issue. Thank you!

Edit: I tried running chmod +x script.sh and I will get the above errors. Am I running 'echo' wrong? Even running:'for FILE in *fastq;doecho -ehello;done'says Command 'hello' not found

Edit: Running 'bash file.sh' yields the following:bash file.sh yields the following (for each of the 5 .fastq files in my directoy):

Slurm_Generator.sh: line 8: #!/bin/bash: No such file or directorySlurm_Generator.sh: line 9: \n#SBATCH: command not foundSlurm_Generator.sh: line 11: \n#SBATCH: command not foundSlurm_Generator.sh: line 13: \n#SBATCH: command not foundSlurm_Generator.sh: line 15: \n#SBATCH: command not foundSlurm_Generator.sh: line 17: \n#SBATCH: command not foundSlurm_Generator.sh: line 19: \n#SBATCH: command not foundSlurm_Generator.sh: line 21: \n#SBATCH: command not foundSlurm_Generator.sh: line 23: \n#SBATCH: command not foundSlurm_Generator.sh: line 25: \n#SBATCH: command not foundSlurm_Generator.sh: line 27: \n#SBATCH: command not foundSlurm_Generator.sh: line 30: \n: command not foundSlurm_Generator.sh: line 31: \n#ADD: command not foundSlurm_Generator.sh: line 34: \n: command not foundSlurm_Generator.sh: line 35: \nsacct: command not found

If I run cat -A file.sh I see a $ at the end of each line. Even if I get rid of these, I get the same result as above.Running ls -al script.sh gived: -rwxrwxrwx 1 cerberus cerberus 1209 Jun 16 00:17 Slurm_Generator.sh

Edit:I changed my script to:

#! /bin/bashfor FILE in *fastq;    #change file type when needed (e.g., fasta, fastq, fastq.gz)do echo -e \"#\!/bin/bash#SBATCH --partition=nonpre  # Partition (job queue)#SBATCH --requeue              # Return job to the queue if preempted#SBATCH --job-name=samples     # Assign a short name to your job#SBATCH --nodes=1              # Number of nodes you require#SBATCH --ntasks=1             # Total # of tasks across all nodes#SBATCH --cpus-per-task=64 # Cores per task (>1 if multithread tasks)#SBATCH --mem=180000           # Real memory (RAM) required (MB)#SBATCH --time=72:00:00        # Total run time limit (HH:MM:SS)#SBATCH --output=slurm.%N.${FILE}.out # STDOUT output file#SBATCH --error=slurm.%N.${FILE}.err  # STDERR output file (optional)#ADD WHATEVER CODE YOU WANT HERE AS YOUR SLURM JOB SUBMISSION \sacct --format=JobID,JobName,NTasks,NNodes,NCPUS,MaxRSS,AveRSS,AveCPU,Elapsed,ExitCode -j \$SLURM_JOBID \#this will get job run stats from SLURM\; use these to help designate memory of future subm$" \> ${FILE}.sh;done

My new output is the following (which is much better):

#\!/bin/bash#SBATCH --partition=nonpre  # Partition (job queue)#SBATCH --requeue           # Return job to the queue if preempted#SBATCH --job-name=samples      # Assign a short name to your job#SBATCH --nodes=1                 # Number of nodes you require#SBATCH --ntasks=1                # Total # of tasks across all nodes#SBATCH --cpus-per-task=64 # Cores per task (>1 if multithread tasks)#SBATCH --mem=180000              # Real memory (RAM) required (MB)#SBATCH --time=72:00:00           # Total run time limit (HH:MM:SS)#SBATCH --output=slurm.%N.Sample1.fastq.out  # STDOUT output file#SBATCH --error=slurm.%N.Sample1.fastq.er  # STDERR output file (optional)#ADD WHATEVER CODE YOU WANT HERE AS YOUR SLURM JOB SUBMISSIONsacct --format=JobID,JobName,NTasks,NNodes,NCPUS,MaxRSS,AveRSS,AveCPU,Elapsed,ExitCode -j $SLURM_JOBID \#this will get job run stats from SLURM\; use these to help designate memory of future submissions

The only issue I am running into is that while it prints this out for each .fastq file, which is what I want, the resulting .sh files that it writes out are blank. So it is not recognizing the > ${File}.sh part of the script.

Edit [SOLVED]:I had to add a \ before the line that states > ${File}.sh

Thank you everyone!