Changes in the installation documentation (Inria-Empenn#215)

INSTALL.md

@@ -30,13 +30,17 @@ Now that you cloned the repository using Datalad, you are able to get the data :
 # Move inside the root directory of the repository.
 cd narps_open_pipelines
 
-# Select the data you want to download. Here is an example to get data of the first 4 subjects.
+# Select the data you want to download. Here is an example to get data of subjects sub-001, sub-002, sub-003 and sub-004.
 datalad get data/original/ds001734/sub-00[1-4] -J 12
 datalad get data/original/ds001734/derivatives/fmriprep/sub-00[1-4] -J 12
+
+# Here is an example to get original results data from team 08MQ
+datalad get data/results/orig/4953_08MQ/* -J 12
 ```
 
-> [!NOTE]  
+> [!NOTE]
 > For further information and alternatives on how to get the data, see the corresponding documentation page [docs/data.md](docs/data.md).
+> Also visit this page to get the whole dataset.
 
 ## 4 - Set up the environment
 
@@ -101,11 +105,12 @@ Finally, you are able to use the scripts of the project :
 * `narps_open_status`: get status information about the development process of the pipelines
 
 ```bash
-# Run the pipeline for team 2T6S, with 40 subjects
-narps_open_runner -t 2T6S -n 40
+# Run the pipeline for team 2T6S, with subjects sub-001, sub-002, sub-003 and sub-004
+narps_open_runner -t 2T6S -s 1 2 3 4
 
 # Run the pipeline for team 08MQ, compare results with original ones,
 #   and produces a report with correlation values.
+#   WARNING : this will run the pipeline on more than the 4 first subjects
 narps_open_tester -t 08MQ
 
 # Compute the correlation values between results of 2T6S reproduction on 60 subjects with original ones
@@ -115,8 +120,8 @@ narps_open_correlations -t 2T6S -n 60
 # Get the description of team C88N in markdown formatting
 narps_description -t C88N --md
 
-# Download the results from all teams
-narps_results -a
+# Download the results from team 2T6S
+narps_results -t 2T6S
 
 #  Get the pipeline work status information in json formatting
 narps_open_status --json
@@ -126,7 +131,6 @@ narps_open_status --json
 > For further information about these command line tools, read the corresponding documentation pages.
 > * `narps_open_runner` : [docs/running.md](docs/running.md)
 > * `narps_open_tester` : [docs/testing.md](docs/testing.md#command-line-tool)
-> * `narps_open_correlations` : [docs/correlation.md](docs/correlation.md#command-line-tool)
 > * `narps_description` : [docs/description.md](docs/description.md)
 > * `narps_results` : [docs/data.md](docs/data.md#results-from-narps-teams)
 > * `narps_open_status` : [docs/status.md](docs/status.md)