diff --git a/doc/TP_experimental_biologists.md b/doc/TP_experimental_biologists.md index 7781c8f2c48db65f7550bdd2d4879e0a815dd847..f0aac22ec3b4e6ad418b92af0093cfff907c3bfb 100644 --- a/doc/TP_experimental_biologists.md +++ b/doc/TP_experimental_biologists.md @@ -47,7 +47,7 @@ The [CONTRIBUTING.md](https://gitlab.biologie.ens-lyon.fr/pipelines/nextflow/blo The [data](https://gitlab.biologie.ens-lyon.fr/pipelines/nextflow/tree/master/data) folder will be the place where you store the raw data for your analysis. The [results](https://gitlab.biologie.ens-lyon.fr/pipelines/nextflow/tree/master/results) folder will be the place where you store the results of your analysis. -> Note that the content of `data` and `results` folders should never be saved on git. +> **The content of `data` and `results` folders should never be saved on git.** The [doc](https://gitlab.biologie.ens-lyon.fr/pipelines/nextflow/tree/master/doc) folder contains the documentation of this practical course. @@ -164,8 +164,19 @@ After writing this first pipeline, you may want to test it. To do that, first cl You can then run the following commands to download your project on your computer: +If you are on a PSMN computer: + ```sh +pip install cutadapt=1.14 +PATH="/scratch/lmodolo/:$PATH" git config --global http.sslVerify false +``` + +and then : + +> Don't forget to replace *https://gitlab.biologie.ens-lyon.fr/* by *gitlab_lbmc* if you are using your own computer + +```sh git clone https://gitlab.biologie.ens-lyon.fr/<usr_name>/nextflow.git cd nextflow src/install_nextflow.sh