Minor documentation updates for 0.3.0 (#344)

* typo

* don't mention CLI in README

* remove apple silicon-specific instructions

* Add link to microscope installation guide to main README

README.md

@@ -14,7 +14,7 @@ The acquisition, calibration, background correction, reconstruction, and applica
 Syuan-Ming Guo, Li-Hao Yeh, Jenny Folkesson, Ivan E Ivanov, Anitha P Krishnan, Matthew G Keefe, Ezzat Hashemi, David Shin, Bryant B Chhun, Nathan H Cho, Manuel D Leonetti, May H Han, Tomasz J Nowakowski, Shalin B Mehta, "Revealing architectural order with quantitative label-free imaging and deep learning," eLife 2020;9:e55502 DOI: 10.7554/eLife.55502 (2020).
 ```
 
-`recOrder` is to be used alongside a conventional widefield microscope fitted with a universal polarizer (Panel A below).  The universal polarizer allows for the collection of label-free information including the intrinsic anisotropy of the sample and its relative phase (density). These measurements are collected by acquiring data under calibrated, polarization-diverse illumination followed by a computational reconstruction.  The overall structure of `recOrder` is shown in Panel B, highlighting the two different usage modes and their features: graphical user interface (GUI) through a napari plugin, and a command line interface (CLI).
+`recOrder` is to be used alongside a conventional widefield microscope fitted with a universal polarizer (Panel A below).  The universal polarizer allows for the collection of label-free information including the intrinsic anisotropy of the sample and its relative phase (density). These measurements are collected by acquiring data under calibrated, polarization-diverse illumination followed by a computational reconstruction. The overall structure of `recOrder` is shown in Panel B, highlighting the structure of the graphical user interface (GUI) through a napari plugin.
 
 ![Flow Chart](https://github.com/mehta-lab/recOrder/blob/main/docs/images/recOrder_Fig1_Overview.png?raw=true)
 
@@ -34,13 +34,6 @@ conda create -y -n recOrder python=3.9
 conda activate recOrder
 ```
 
-> *Apple Silicon users please use*:
->
-> ```sh
-> CONDA_SUBDIR=osx-64 conda create -y -n recOrder python=3.9
-> conda activate recOrder
-> ```
-
 Install `recOrder-napari`:
 
 ```sh
@@ -53,4 +46,5 @@ Open `napari` with `recOrder-napari`:
 napari -w recOrder-napari
 ```
 
-For more help, see [`recOrder`'s documentation](./docs).
+For more help, see [`recOrder`'s documentation](./docs). To install `recOrder` 
+on a microscope, see the [microscope installation guide](./docs/microscope-installation-guide.md).

docs/development-guide.md

@@ -9,16 +9,6 @@
     conda activate recOrder
     ```
 
-    > *Apple Silicon users please use*:
-    >
-    > ```sh
-    > CONDA_SUBDIR=osx-64 conda create -y -n recOrder python=3.9
-    > conda activate recOrder
-    > ```
-    >
-    > Reason: `napari` requires `PyQt5` which is not available for `arm64` from PyPI wheels.
-    > Specifying `CONDA_SUBDIR=osx-64` will install an `x86_64` version of `python` which has `PyQt5` wheels available.
-
 2. Clone the `recOrder` directory:
 
     ```sh

docs/microscope-installation-guide.md

@@ -72,4 +72,4 @@ Finally, enable port access so that `Micromanager` can communicate with recOrder
 
 From the `recOrder` window, click `Switch to Online`. If you see `Success`, your installation is complete and you can [proceed to the napari plugin guide](./napari-plugin-guide.md). 
 
-If you you see `Failed`, check that `Micromanager` is open, check that you've enabled `Run server on port 4827`. If the connection continues to fail, report an issue with you stack trace for support. 
+If you you see `Failed`, check that `Micromanager` is open, check that you've enabled `Run server on port 4827`. If the connection continues to fail, report an issue with your stack trace for support.