diff --git a/_sources/tutorials.rst.txt b/_sources/tutorials.rst.txt
index 84bb692436..3ff1ff3600 100644
--- a/_sources/tutorials.rst.txt
+++ b/_sources/tutorials.rst.txt
@@ -299,63 +299,34 @@ Docker has a lamentable use of space and by default does not clean up excess dat
Using Singularity
*****************
-'Singularity '_ is another container platform able to run Docker images. Singularity could be used from laptop to large HPC clusters, local university or company clusters, a single server, in the cloud...
-A container is a single file without anything else to install
+[Singularity](https://sylabs.io/) is another container platform able to run Docker images. Singularity can be run both on local machins and in instances where the user does not have root access. Instances where a user may not have root privlidges include HPC clusters and cloud cluster resources.
+A container is a single file without anything else to install.
Downloading image
=================
Singularity can use ODM Docker container after their download. It creates .sif images
-For latest ODM Docker image
+For latest ODM Docker image (Recommended)
.. code:: bash
-
- > singularity pull --disable-cache docker://opendronemap/odm:latest
+ singularity pull --disable-cache docker://opendronemap/odm:latest
For latest ODM GPU Docker image
.. code:: bash
-
- > singularity pull --disable-cache docker://opendronemap/odm:gpu
+ singularity pull --disable-cache docker://opendronemap/odm:gpu
Using Singularity SIF image
===========================
-As Singularity has a different way to map directories than Docker, a bash script file is a good solution to map ODM directories.
-Here is a linux example for ODM ::
+Once you have used one of the above commands to download and create the `odm_latest.sif` image, it can be ran using singularity.
+Place your images in a directory named “images” (for example /my/project/images) , then simply run
- images_dir=/path_to_image_dir/
- name=`basename $images_dir`
- output_dir=/path_to_output_directories/$name
- mkdir -p $output_dir
-
- singularity run
- --bind $images_dir:/$output_dir/code/images,\
- --writable-tmpfs odm_latest.sif \
- --orthophoto-png --mesh-octree-depth 12 --ignore-gsd --dtm \
- --smrf-threshold 0.4 --smrf-window 24 --dsm --pc-csv --pc-las --orthophoto-kmz \
- --ignore-gsd --matcher-type flann --feature-quality ultra --max-concurrency 16 \
- --use-hybrid-bundle-adjustment --build-overviews --time --min-num-features 10000 \
- --project-path $output_dir
-
-
-Here is a linux example for the ODM with GPU ::
-
- images_dir=/path_to_image_dir/
- name=`basename $images_dir`
- output_dir=/path_to_output_directories/$name
- mkdir -p $output_dir
-
- singularity run
- --bind $images_dir:/$output_dir/code/images,\
- --writable-tmpfs odm_latest.sif \
- --orthophoto-png --mesh-octree-depth 12 --ignore-gsd --dtm \
- --smrf-threshold 0.4 --smrf-window 24 --dsm --pc-csv --pc-las --orthophoto-kmz \
- --ignore-gsd --matcher-type flann --feature-quality ultra --max-concurrency 16 \
- --use-hybrid-bundle-adjustment --build-overviews --time --min-num-features 10000 \
- --project-path $output_dir
+..code:: bash
+ singularity run --bind /my/project:datasets/code odm_latest.sif --project-path /datasets
+Like with docker, additional Options and Flags can be added to the command.
*************************************
Using ODM from low-bandwidth location
diff --git a/cs/.doctrees/environment.pickle b/cs/.doctrees/environment.pickle
index da9d5e8486..13ebef3ee3 100644
Binary files a/cs/.doctrees/environment.pickle and b/cs/.doctrees/environment.pickle differ
diff --git a/cs/.doctrees/flowchart.doctree b/cs/.doctrees/flowchart.doctree
index 4ca54def95..65ea55054d 100644
Binary files a/cs/.doctrees/flowchart.doctree and b/cs/.doctrees/flowchart.doctree differ
diff --git a/cs/.doctrees/tutorials.doctree b/cs/.doctrees/tutorials.doctree
index bc1e9eb732..36b9e830c7 100644
Binary files a/cs/.doctrees/tutorials.doctree and b/cs/.doctrees/tutorials.doctree differ
diff --git a/cs/_sources/tutorials.rst.txt b/cs/_sources/tutorials.rst.txt
index 84bb692436..3ff1ff3600 100644
--- a/cs/_sources/tutorials.rst.txt
+++ b/cs/_sources/tutorials.rst.txt
@@ -299,63 +299,34 @@ Docker has a lamentable use of space and by default does not clean up excess dat
Using Singularity
*****************
-'Singularity '_ is another container platform able to run Docker images. Singularity could be used from laptop to large HPC clusters, local university or company clusters, a single server, in the cloud...
-A container is a single file without anything else to install
+[Singularity](https://sylabs.io/) is another container platform able to run Docker images. Singularity can be run both on local machins and in instances where the user does not have root access. Instances where a user may not have root privlidges include HPC clusters and cloud cluster resources.
+A container is a single file without anything else to install.
Downloading image
=================
Singularity can use ODM Docker container after their download. It creates .sif images
-For latest ODM Docker image
+For latest ODM Docker image (Recommended)
.. code:: bash
-
- > singularity pull --disable-cache docker://opendronemap/odm:latest
+ singularity pull --disable-cache docker://opendronemap/odm:latest
For latest ODM GPU Docker image
.. code:: bash
-
- > singularity pull --disable-cache docker://opendronemap/odm:gpu
+ singularity pull --disable-cache docker://opendronemap/odm:gpu
Using Singularity SIF image
===========================
-As Singularity has a different way to map directories than Docker, a bash script file is a good solution to map ODM directories.
-Here is a linux example for ODM ::
+Once you have used one of the above commands to download and create the `odm_latest.sif` image, it can be ran using singularity.
+Place your images in a directory named “images” (for example /my/project/images) , then simply run
- images_dir=/path_to_image_dir/
- name=`basename $images_dir`
- output_dir=/path_to_output_directories/$name
- mkdir -p $output_dir
-
- singularity run
- --bind $images_dir:/$output_dir/code/images,\
- --writable-tmpfs odm_latest.sif \
- --orthophoto-png --mesh-octree-depth 12 --ignore-gsd --dtm \
- --smrf-threshold 0.4 --smrf-window 24 --dsm --pc-csv --pc-las --orthophoto-kmz \
- --ignore-gsd --matcher-type flann --feature-quality ultra --max-concurrency 16 \
- --use-hybrid-bundle-adjustment --build-overviews --time --min-num-features 10000 \
- --project-path $output_dir
-
-
-Here is a linux example for the ODM with GPU ::
-
- images_dir=/path_to_image_dir/
- name=`basename $images_dir`
- output_dir=/path_to_output_directories/$name
- mkdir -p $output_dir
-
- singularity run
- --bind $images_dir:/$output_dir/code/images,\
- --writable-tmpfs odm_latest.sif \
- --orthophoto-png --mesh-octree-depth 12 --ignore-gsd --dtm \
- --smrf-threshold 0.4 --smrf-window 24 --dsm --pc-csv --pc-las --orthophoto-kmz \
- --ignore-gsd --matcher-type flann --feature-quality ultra --max-concurrency 16 \
- --use-hybrid-bundle-adjustment --build-overviews --time --min-num-features 10000 \
- --project-path $output_dir
+..code:: bash
+ singularity run --bind /my/project:datasets/code odm_latest.sif --project-path /datasets
+Like with docker, additional Options and Flags can be added to the command.
*************************************
Using ODM from low-bandwidth location
diff --git a/cs/flowchart/index.html b/cs/flowchart/index.html
index dfeed7f71b..e091634fb7 100644
--- a/cs/flowchart/index.html
+++ b/cs/flowchart/index.html
@@ -24,7 +24,7 @@