added install instructions to readme

README.md

@@ -2,12 +2,33 @@
 
 ## Installation
 
+### Environment setup
+
+#### Python / conda
+
+We recommend using a new conda environment from scratch
+
+```bash
+conda env create -n thaw_slump_segmentation python=3.10 mamba -c conda-forge
+conda activate thaw_slump_segmentation
+```
+
+#### gdal
+
+gdal incl. gdal-utilities (preferably version >=3.6) need to be installed in your environment, e.g. with conda/mamba
+
+```bash
+mamba install gdal>=3.6 -c conda-forge
+```
+
+### Package Installation
+
 * Latest development version: `pip install git+https://github.com/initze/thaw-slump-segmentation`
 * Latest release: `pip install https://github.com/initze/thaw-slump-segmentation/releases/download/untagged-f6739f56e0ee4c2c64fe/thaw_slump_segmentation-0.10.0-py3-none-any.whl`
 
 This will pull the CUDA 12 version of pytorch. If you are running CUDA 11, you need to manually switch to the corresponding Pytorch package afterwards by running `pip3 install torch==2.2.0+cu118 torchvision==0.17.0+cu118 --index-url https://download.pytorch.org/whl/cu118`
 
-gdal incl. gdal-utilities (preferably version >=3.6) need to be installed in your environment, e.g. with conda
+
 
 ### Additional packages
 #### cucim
@@ -29,9 +50,11 @@ The container contains all requirements to run the processing code, singularity
 singularity pull library://initze/aicore/thaw_slump_segmentation
 singularity shell --nv --bind <your bind path> thaw_slump_segmentation.sif
 ```
+
 ### Option 2 - anaconda
 ### Environment setup
 We recommend using a new conda environment from the provided environment.yml file
+
 ```bash
 conda env create -n aicore -f environment.yml
 ```
@@ -61,27 +84,32 @@ gdal_bin: '%CONDA_PREFIX%\Library\bin' # must be single quote
 ### Data Preprocessing for Planet data
 
 #### Setting up all required files for training and/or inference 
+
 ```bash
 python setup_raw_data.py --data_dir <DATA_DIR>
 ```
 
 #### Setting up required files for training 
+
 ```bash
 python prepare_data.py --data_dir <DATA_DIR>
 ```
 
 ### Data Preprocessing for Sentinel 2 data to match planet format
+
 ```bash
 python download_s2_4band_planet_format.py --s2id <IMAGE_ID> --data_dir <DATA_DIR>
 ```
 
 
 ### Training a model
+
 ```bash
 python train.py --data_dir <DATA_DIR> -n <MODEL_NAME>
 ```
 
 ### Running Inference
+
 ```bash
 python setup_raw_data.py --data_dir <DATA_DIR> --nolabel
 python inference.py --data_dir <DATA_DIR> --model_dir <MODEL_NAME> 20190727_160426_104e 20190709_042959_08_1057