“Permission denied” while running a bash script
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I'm new to linux, coding and generally computer sciences. I am trying to run a bash script, but I get this error:
./fastalign_train.sh: line 5: /forward.align: Permission denied
./fastalign_train.sh: line 6: /reverse.align: Permission denied
There are two txt files (forward.align and reverse.align):
ls -l result:
-rwxr-xr-x 1 tara tara 72 Feb 12 08:05 reverse.align
-rwxr-xr-x 1 tara tara 76 Feb 12 08:05 forward.align
-rwxr-xr-x 1 tara tara 2089888 Feb 11 03:00 fast_align
-rwxrwxrwx 1 tara tara 242 Feb 11 12:32 fastalign_train.sh
Any idea? Thank you guys!
command-line bash permissions scripts
edited Feb 12 at 5:56
vidarlo
10.7k52852
asked Feb 12 at 5:50
Z AzinZ Azin
82
add a comment |
I'm new to linux, coding and generally computer sciences. I am trying to run a bash script, but I get this error:
./fastalign_train.sh: line 5: /forward.align: Permission denied
./fastalign_train.sh: line 6: /reverse.align: Permission denied
There are two txt files (forward.align and reverse.align):
ls -l result:
-rwxr-xr-x 1 tara tara 72 Feb 12 08:05 reverse.align
-rwxr-xr-x 1 tara tara 76 Feb 12 08:05 forward.align
-rwxr-xr-x 1 tara tara 2089888 Feb 11 03:00 fast_align
-rwxrwxrwx 1 tara tara 242 Feb 11 12:32 fastalign_train.sh
Any idea? Thank you guys!
command-line bash permissions scripts
edited Feb 12 at 5:56
vidarlo
10.7k52852
asked Feb 12 at 5:50
Z AzinZ Azin
82
add a comment |
I'm new to linux, coding and generally computer sciences. I am trying to run a bash script, but I get this error:
./fastalign_train.sh: line 5: /forward.align: Permission denied
./fastalign_train.sh: line 6: /reverse.align: Permission denied
There are two txt files (forward.align and reverse.align):
ls -l result:
-rwxr-xr-x 1 tara tara 72 Feb 12 08:05 reverse.align
-rwxr-xr-x 1 tara tara 76 Feb 12 08:05 forward.align
-rwxr-xr-x 1 tara tara 2089888 Feb 11 03:00 fast_align
-rwxrwxrwx 1 tara tara 242 Feb 11 12:32 fastalign_train.sh
Any idea? Thank you guys!
command-line bash permissions scripts
edited Feb 12 at 5:56
vidarlo
10.7k52852
asked Feb 12 at 5:50
Z AzinZ Azin
82
I'm new to linux, coding and generally computer sciences. I am trying to run a bash script, but I get this error:
./fastalign_train.sh: line 5: /forward.align: Permission denied
./fastalign_train.sh: line 6: /reverse.align: Permission denied
There are two txt files (forward.align and reverse.align):
ls -l result:
-rwxr-xr-x 1 tara tara 72 Feb 12 08:05 reverse.align
-rwxr-xr-x 1 tara tara 76 Feb 12 08:05 forward.align
-rwxr-xr-x 1 tara tara 2089888 Feb 11 03:00 fast_align
-rwxrwxrwx 1 tara tara 242 Feb 11 12:32 fastalign_train.sh
Any idea? Thank you guys!
command-line bash permissions scripts
command-line bash permissions scripts
edited Feb 12 at 5:56
vidarlo
10.7k52852
asked Feb 12 at 5:50
Z AzinZ Azin
82
edited Feb 12 at 5:56
vidarlo
10.7k52852
asked Feb 12 at 5:50
Z AzinZ Azin
82
edited Feb 12 at 5:56
vidarlo
10.7k52852
edited Feb 12 at 5:56
vidarlo
10.7k52852
edited Feb 12 at 5:56
vidarlo
10.7k52852
10.7k52852
asked Feb 12 at 5:50
Z AzinZ Azin
82
asked Feb 12 at 5:50
Z AzinZ Azin
82
asked Feb 12 at 5:50
Z AzinZ Azin
82
82
add a comment |
add a comment |
1 Answer
1
active
oldest
votes
The hint is in the filename shown: /forward.align
This implies that you try to write to /forward.align, which is in the root (/) of the file system. Users do not have write permissions there.
Replace /forward.align with either ./forward.align or forward.align., and same for /reverse.align, and it should work.
answered Feb 12 at 5:58
vidarlovidarlo
10.7k52852
Yes, it runs now but there is no output...like nothing happens. this is the main line of my bash code: ${FASTALIGN}/fast_align -i $1 -d -o -v -p $2/fwd_params > $2./forward.align 2>$2./fwd_err
– Z Azin
Feb 12 at 6:25
1
Post a new question if you have a new question. If you want help debugging, include all of your script.
– vidarlo
Feb 12 at 6:27
add a comment |
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1 Answer
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1 Answer
1
active
oldest
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active
oldest
votes
active
oldest
votes
The hint is in the filename shown: /forward.align
This implies that you try to write to /forward.align, which is in the root (/) of the file system. Users do not have write permissions there.
Replace /forward.align with either ./forward.align or forward.align., and same for /reverse.align, and it should work.
answered Feb 12 at 5:58
vidarlovidarlo
10.7k52852
Yes, it runs now but there is no output...like nothing happens. this is the main line of my bash code: ${FASTALIGN}/fast_align -i $1 -d -o -v -p $2/fwd_params > $2./forward.align 2>$2./fwd_err
– Z Azin
Feb 12 at 6:25
1
Post a new question if you have a new question. If you want help debugging, include all of your script.
– vidarlo
Feb 12 at 6:27
add a comment |
The hint is in the filename shown: /forward.align
This implies that you try to write to /forward.align, which is in the root (/) of the file system. Users do not have write permissions there.
Replace /forward.align with either ./forward.align or forward.align., and same for /reverse.align, and it should work.
answered Feb 12 at 5:58
vidarlovidarlo
10.7k52852
Yes, it runs now but there is no output...like nothing happens. this is the main line of my bash code: ${FASTALIGN}/fast_align -i $1 -d -o -v -p $2/fwd_params > $2./forward.align 2>$2./fwd_err
– Z Azin
Feb 12 at 6:25
1
Post a new question if you have a new question. If you want help debugging, include all of your script.
– vidarlo
Feb 12 at 6:27
add a comment |
The hint is in the filename shown: /forward.align
This implies that you try to write to /forward.align, which is in the root (/) of the file system. Users do not have write permissions there.
Replace /forward.align with either ./forward.align or forward.align., and same for /reverse.align, and it should work.
answered Feb 12 at 5:58
vidarlovidarlo
10.7k52852
The hint is in the filename shown: /forward.align
This implies that you try to write to /forward.align, which is in the root (/) of the file system. Users do not have write permissions there.
Replace /forward.align with either ./forward.align or forward.align., and same for /reverse.align, and it should work.
answered Feb 12 at 5:58
vidarlovidarlo
10.7k52852
answered Feb 12 at 5:58
vidarlovidarlo
10.7k52852
answered Feb 12 at 5:58
vidarlovidarlo
10.7k52852
answered Feb 12 at 5:58
vidarlovidarlo
10.7k52852
10.7k52852
Yes, it runs now but there is no output...like nothing happens. this is the main line of my bash code: ${FASTALIGN}/fast_align -i $1 -d -o -v -p $2/fwd_params > $2./forward.align 2>$2./fwd_err
– Z Azin
Feb 12 at 6:25
1
Post a new question if you have a new question. If you want help debugging, include all of your script.
– vidarlo
Feb 12 at 6:27
add a comment |
Yes, it runs now but there is no output...like nothing happens. this is the main line of my bash code: ${FASTALIGN}/fast_align -i $1 -d -o -v -p $2/fwd_params > $2./forward.align 2>$2./fwd_err
– Z Azin
Feb 12 at 6:25
1
Post a new question if you have a new question. If you want help debugging, include all of your script.
– vidarlo
Feb 12 at 6:27
Yes, it runs now but there is no output...like nothing happens. this is the main line of my bash code: ${FASTALIGN}/fast_align -i $1 -d -o -v -p $2/fwd_params > $2./forward.align 2>$2./fwd_err
– Z Azin
Feb 12 at 6:25
Yes, it runs now but there is no output...like nothing happens. this is the main line of my bash code: ${FASTALIGN}/fast_align -i $1 -d -o -v -p $2/fwd_params > $2./forward.align 2>$2./fwd_err
– Z Azin
Feb 12 at 6:25
1
1
Post a new question if you have a new question. If you want help debugging, include all of your script.
– vidarlo
Feb 12 at 6:27
Post a new question if you have a new question. If you want help debugging, include all of your script.
– vidarlo
Feb 12 at 6:27
add a comment |
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