@@ -4,7 +4,7 @@ This is a minimal example that uses Astrocyte as a runner to run an existing wor
## Requirements
- The Astrocyte base workflow, [`astrocyte_example_git_source`](https://git.biohpc.swmed.edu/biohpc/astrocyte_example_git_source). This repo is used to wrap the existing workflow list below, so that it can be run on the Astrocyte platforms.
- The existing workflow, [`astrocyte_example_git_source__slave`](https://git.biohpc.swmed.edu/biohpc/astrocyte_example_git_source__slave). This repo contains an existing workflow written in bash.
- The existing workflow, [`astrocyte_example_git_source__slave`](https://git.biohpc.swmed.edu/astrocyte/workflows/biohpc/astrocyte_example_git_source__slave.git). This repo contains an existing workflow written in bash.
## The existing workflow
There is only on bash script, `complicated_program.sh`, in the existing workflow. It captures arguments from the command line, displays them in the output, and performs a word count calculation if the input file exists. The usage of this script is as below.
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@@ -37,7 +37,7 @@ These are the places where the magic happens. The existing repo will be cloned a
Please run the following commands in the base repo to update the submodule and check the status every time you made any changes in the remote repo or the `.gitmodules` file.
@@ -4,7 +4,7 @@ This is a minimal example that uses Astrocyte as a runner to run an existing wor
## Requirements
- The Astrocyte base workflow, [`astrocyte_example_git_source`](https://git.biohpc.swmed.edu/biohpc/astrocyte_example_git_source). This repo is used to wrap the existing workflow list below, so that it can be run on the Astrocyte platforms.
- The existing workflow, [`astrocyte_example_git_source__slave`](https://git.biohpc.swmed.edu/biohpc/astrocyte_example_git_source__slave). This repo contains an existing workflow written in bash.
- The existing workflow, [`astrocyte_example_git_source__slave`](https://git.biohpc.swmed.edu/astrocyte/workflows/biohpc/astrocyte_example_git_source__slave.git). This repo contains an existing workflow written in bash.
## The existing workflow
There is only on bash script, `complicated_program.sh`, in the existing workflow. It captures arguments from the command line, displays them in the output, and performs a word count calculation if the input file exists. The usage of this script is as below.
...
...
@@ -37,7 +37,7 @@ These are the places where the magic happens. The existing repo will be cloned a
Please run the following commands in the base repo to update the submodule and check the status every time you made any changes in the remote repo or the `.gitmodules` file.