From 544752fe2d74da658c94e43cfc45506d17c7d1bb Mon Sep 17 00:00:00 2001 From: Mohammad Akhlaghi Date: Sun, 25 Nov 2018 16:17:36 +0000 Subject: Instructions on changing input dataset in pipeline A step has been added to the checklist to correct the template's input dataset into the custom dataset necessary for each research. --- README-pipeline.md | 16 +++++++++++----- 1 file changed, 11 insertions(+), 5 deletions(-) diff --git a/README-pipeline.md b/README-pipeline.md index 6effa30..9ca0cd2 100644 --- a/README-pipeline.md +++ b/README-pipeline.md @@ -531,14 +531,20 @@ advanced in later stages of your work. through the `reproduce/config/pipeline/INPUTS.mk` file. It is best to gather all the information regarding all the input datasets into this one central file. To ensure that the proper dataset is being - downloaded and used by the pipeline, its best to also get an MD5 - checksum (https://en.wikipedia.org/wiki/MD5) of the file and include - that in thsi file so you can check it in the pipeline. The preparation - of the input datasets is done in + downloaded and used by the pipeline, it is also recommended get an + [MD5 checksum](https://en.wikipedia.org/wiki/MD5) of the file and + include that in `INPUTS.mk` so you can check it in the pipeline. The + preparation of the input datasets is done in `reproduce/src/make/download.mk`. Have a look there to see how these values are to be used. This information about the input datasets is also used in the initial `configure` script (to inform the users), so - also modify that file. + also modify that file. You can find all occurrences of the template + dataset with the command below and replace it with your input's + dataset. + + ```shell + $ grep -ir wfpc2 ./* + ``` - **Delete dummy parts (can be done later)**: The template pipeline contains some parts that are only for the initial/test run, mainly as -- cgit v1.2.1