AGC run fails when empty strings in inputs.json file

[biofilos]

Describe the Bug

If the inptus.json of a workflow contains empty strings

{
    "wf.something": 1,
    "wf.thisWillCrash": ""
}

When I run agc workflow run, the command will fail complaining that the directory where the input.json file is located is a directory. For some reason, the command crops out the file name of the inputs.json and continues processing the directory as if it was the inputs.json.

Although this bug should be fixed (or explained this behavior in the documentation), a work-around is to avoid empty strings in the input.json, and use empty strings as default values in the wdl file itself, or use non-empty values in the inputs.json, and catch them with logic in the wdl file.

Steps to Reproduce

1. Include empty strings as value of a input.json
2. Run agc workflow run wf_name --inputsFile input.json

Relevant Logs

When running the workflow with empty strings in input.json

2022-10-27T17:06:29+08:00 𝒊  Running workflow. Workflow name: 'variants', InputsFile: 'inputs/variants.inputs.json', OptionFile: '', Context: 'ctx1'
2022-10-27T17:06:30+08:00 ✘   error="unable to run workflow: unable to sync s3://agc-xxxxxx-ap-xxx-1/project/testProject/userid/userSDFHG/data: upload multipart failed, upload id: uPenv1AiRi0I55mR1X48ppYXYmHNy.t_0uWPDkIC62xkPlHzHGchJvBcA9Vh7isnJqpLZvw6.N8XC2OHQ2_zXtfQc1cuxc_0_BE2zgNQ_0f2u1dkkUMm_czBd86pZPDQ9gF_USm7D69KGdNgO6GUtg--, cause: operation error S3: UploadPart, failed to compute payload hash: failed to compute payload hash, read /home/user/Documents/projects/scalable-workflows/aws/inputs/: is a directory"
Error: an error occurred invoking 'workflow run'
with variables: {WorkflowName:variants Arguments:inputs/variants.inputs.json OptionFile: ContextName:ctx1}
caused by: unable to run workflow: unable to sync s3://agc-662002918436-ap-southeast-1/project/testProject/userid/jfortiz4vr6sV/data: upload multipart failed, upload id: uPenv1AiRi0I55mR1X48ppYXYmHNy.t_0uWPDkIC62xkPlHzHGchJvBcA9Vh7isnJqpLZvw6.N8XC2OHQ2_zXtfQc1cuxc_0_BE2zgNQ_0f2u1dkkUMm_czBd86pZPDQ9gF_USm7D69KGdNgO6GUtg--, cause: operation error S3: UploadPart, failed to compute payload hash: failed to compute payload hash, read /home/user/Documents/projects/scalable-workflows/aws/inputs/: is a directory

Expected Behavior

Workflow runs

Actual Behavior

AGC fails claiming that it can not compute the payload hash of the directory where the input.json file is

Screenshots

Additional Context

Operating System: Ubuntu 22.10 AGC Version: 1.5.1 Was AGC setup with a custom bucket: No Was AGC setup with a custom VPC: No