Permission Denied error when submitting job #26
Description
I am getting permission denied error when running simple hello world snakemake example with local htcondor cluster.
condor_version
$CondorVersion: 23.10.1 2024-10-03 BuildID: 759508 PackageID: 23.10.1-1+ubu22 GitSHA: acedc362 $
$CondorPlatform: X86_64-Ubuntu_22.04 $
snakemake --version
8.28.0
snakefile example
rule all:
input:
"hello_world.txt"
rule say_hello_world:
output:
"hello_world.txt"
shell:
"""
echo "hello world" > {output}
"""
snakemake log
Submitted job 1 with external jobid '1_1b4b3bad-7b9c-4978-90cf-83528660da14_Submitted 1 jobs into cluster 96,0 :'.
[Wed Mar 26 17:34:10 2025]
Error in rule say_hello_world:
message: For further error details see the cluster/cloud log and the log files of the involved rule(s).
jobid: 1
output: hello_world.txt
shell:
echo "hello world" > hello_world.txt
(one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)
external_jobid: 1_1b4b3bad-7b9c-4978-90cf-83528660da14_Submitted 1 jobs into cluster 96,0 :
Trying to restart job 1.
Select jobs to execute...
Execute 1 jobs...
condor err
/var/lib/condor/execute/dir_3566455/bash: /home/hpc/Desktop/condor_test/.snakemake/tmp.dn6i_0ra/snakejob.say_hello_world.1.sh: Permission denied
condor log
CondorScratchDir = "/var/lib/condor/execute/dir_3561107"
Cpus = 1
Disk = 8644886
GPUs = 0
Memory = 1986
...
040 (096.000.000) 2025-03-26 17:30:08 Finished transferring output files
...
004 (096.000.000) 2025-03-26 17:30:08 Job was evicted.
(0) Job terminated and was requeued
Usr 0 00:00:00, Sys 0 00:00:00 - Run Remote Usage
Usr 0 00:00:00, Sys 0 00:00:00 - Run Local Usage
0 - Run Bytes Sent By Job
1396520 - Run Bytes Received By Job
(1) Normal termination (return value 126)
The job attribute OnExitRemove expression 'NumJobCompletions > JobMaxRetries || ExitCode =?= 0' evaluated to FALSE
Could you please suggest how to resolve this ?