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Adjusted script numbering scheme and updated pipeline diagram authored by Mike Cichonski's avatar Mike Cichonski
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running-your-first-job.md
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...@@ -25,17 +25,17 @@ Once you have your context configuration loaded clicking "History file" will ope ...@@ -25,17 +25,17 @@ Once you have your context configuration loaded clicking "History file" will ope
Here is an example of what you may see: Here is an example of what you may see:
![Screenshot_2017-07-18_09-58-54](/uploads/0334a96b1019804273c9de6c0fd2648a/Screenshot_2017-07-18_09-58-54.png) ![htb_example](/uploads/82857a1eebce1d279d1daa9510079276/htb_example.png)
The scripts have prefixes of s followed by the number of the pipeline step. We can select multiple steps of the pipeline by ctrl clicking. The scripts have prefixes of s followed by the number of the pipeline step. We can select multiple steps of the pipeline by ctrl clicking.
Normally we don't need to run the whole pipeline we can just run half the pipeline so long as the data is reasonably clean. Normally we don't need to run the whole pipeline we can just run half the pipeline so long as the data is reasonably clean.
**Full pipeline run** **Full pipeline run**
Select 1-14, 16 Select 1-5, 7-11, 6
**Data side pipeline run** **Data side pipeline run**
Select 1-3, 7-9, 13, 16 Select 1-6
# Selecting the correct batch configuration files # Selecting the correct batch configuration files
The configuration files specify the execution function or scheduler used by the remote server. You must select the correct type of configuration files given your chosen remote host. The configuration files specify the execution function or scheduler used by the remote server. You must select the correct type of configuration files given your chosen remote host.
...@@ -63,9 +63,7 @@ Submission is done by pressing "Ok" ...@@ -63,9 +63,7 @@ Submission is done by pressing "Ok"
The Matlab Command Window will detail the process of submitting the job and display any errors the occur. We have spent a significant amount of time improving the logging of the pipeline so if you choose to submit a Issue about your problem please include a sizable chunk of logs as an attachment. The Matlab Command Window will detail the process of submitting the job and display any errors the occur. We have spent a significant amount of time improving the logging of the pipeline so if you choose to submit a Issue about your problem please include a sizable chunk of logs as an attachment.
# Pipeline Diagram # Pipeline Diagram
![pipe_w_init](/uploads/9ae98545cbe1afbf43cedde93e913aaf/BUCANL_pipeline.png)
![pipe_w_init](/uploads/5276b003d236dd5734c16f34b92c129a/pipe_w_init.png)
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