From 696d5df073b308e6d0c6708377e7a8164597a866 Mon Sep 17 00:00:00 2001 From: Noah Date: Tue, 22 Aug 2023 09:24:58 -0400 Subject: [PATCH] installation docs --- docs/getting_started/installation.rst | 8 +++++--- 1 file changed, 5 insertions(+), 3 deletions(-) diff --git a/docs/getting_started/installation.rst b/docs/getting_started/installation.rst index 4976825..ac7ac3f 100644 --- a/docs/getting_started/installation.rst +++ b/docs/getting_started/installation.rst @@ -409,13 +409,15 @@ There are 2 methods: Automatic and Manual .. code-block:: console - $ conda install questionary -c conda-forge $ cd config $ python auto_config.py + $ mv modified.yaml config.yaml + $ cd .. -There will be interactive questions on the command line that will ask you to enter your 1) working directory and 2) sample table file with download URLs. +There will be interactive questions on the command line that will ask you to enter your 1) working directory 2) sample table file with download URLs and 3) reference assembly info for download. Answer the interactive prompts accordingly and then press RETURN/ENTER. - +NOTE: Using this command-line interactive prompt to update the config.yaml file will erase all comments and notes in your `config.yaml` file. +There is an additional `config-commented.yaml` that you can refer to if you have questions about settings. **B) Manual**