Text review

source/Good_Practices/conda.rst

@@ -11,7 +11,7 @@ Reproducible environment: Conda
 Installation
 ============
 
-from the source
+From the source
 ---------------
 
 First we will install **miniconda**, which is a light version of conda.
@@ -30,13 +30,13 @@ For Linux users, you should see a section like this one:
 
     What about the Python versions and 32/64 bits flavours ?
 
-    #. You have the choice between different architecture (e.g.,  32/64 bits). Usually, you with
-       modern architecture the 64bits version is the one to download.
+    #. You have the choice between different architectures (e.g. 32/64 bits). Usually, with
+       modern architectures, the 64bits version is the one to download.
     #. You have the choice between several version of Python (e.g., 2.7, 3.7, etc).
        This version is independent of the version installed on your computer.
        This will be the version used by conda internally in the first environment (the **base**).
        Later on you may create environments with other Python version anyway. 
-       So, you may choose the latest one(e.g. python 3.9).
+       So, you may choose the latest one (e.g. python 3.9).
 
 As an example, in a Linux terminal you can download this version::
 
@@ -51,7 +51,7 @@ Follow the instructions. Answer yes to "Do you wish the installer to initialize
 
 The installation will create a miniconda folder, by default in the home directory ``(~/miniconda3)``.
 
-say no when `conda` ask you to activate conda by default
+Say no when `conda` ask you to activate conda by default
 
 .. note::
 
@@ -135,8 +135,8 @@ activate conda
 
 .. note::
 
-    The (base) at he beginning of your prompt indicate that you are in base environment.
-    We will see environment later
+    The (base) at the beginning of your prompt indicates that you are in the base environment.
+    We will see environments later on.
 
 We will first install a standard Python package called **pandas**::
 
@@ -254,7 +254,7 @@ First we will activate the environment::
 
 You can see that the information of your current environment is displayed in the bash prompt (ie ``(repro)``).
 
-And install in it the packages needed for our analysis::
+And install in it some packages of interest::
 
   conda install bwa samtools ivar pangolin nextclade_js
 
@@ -311,13 +311,13 @@ You could now delete this environment and reproduce it from the YAML file::
 Mamba
 =====
 
-You find conda install
+If you find conda install:
 
-* too slow,
-* consuming too memory
-* does not able to resolve dependencies either with anaconda or miniconda
+* too slow
+* consuming too much memory
+* to not be able to resolve dependencies either with anaconda or miniconda
 
-try `mamba <https://mamba.readthedocs.io/en/latest/user_guide/mamba.html>`_. In your **base** environment
+Try `mamba <https://mamba.readthedocs.io/en/latest/user_guide/mamba.html>`_. In your **base** environment
 
 .. code-block::
 
@@ -337,7 +337,7 @@ You can swap almost all commands between conda & mamba
 
 .. warning::
 
-    The only difference is that you should still use `conda` for activation and deactivation.
+    The only difference is that you should still use `conda` for activation and deactivation of environments.
 
 
 Exercises