Update all r0.8 references to r0.9 in documentation

PiperOrigin-RevId: 280122378
wu123tj · Nov 13, 2019 · 4c9a265 · 4c9a265
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diff --git a/docs/deepvariant-case-study.md b/docs/deepvariant-case-study.md
@@ -46,7 +46,7 @@ Before you run the script, you can read through all sections to understand the
 details. Here is a quick way to get the script and run it:
 
 ```bash
-curl https://raw.githubusercontent.com/google/deepvariant/r0.8/scripts/run_wgs_case_study_docker.sh | bash
+curl https://raw.githubusercontent.com/google/deepvariant/r0.9/scripts/run_wgs_case_study_docker.sh | bash
 ```
 
 ### Running on a machine with GPU

diff --git a/docs/deepvariant-exome-case-study.md b/docs/deepvariant-exome-case-study.md
@@ -45,7 +45,7 @@ Before you run the script, you can read through all sections to understand the
 details. Here is a quick way to get the script and run it:
 
 ```bash
-curl https://raw.githubusercontent.com/google/deepvariant/r0.8/scripts/run_wes_case_study_docker.sh | bash
+curl https://raw.githubusercontent.com/google/deepvariant/r0.9/scripts/run_wes_case_study_docker.sh | bash
 ```
 
 ### Runtime

diff --git a/docs/deepvariant-pacbio-model-case-study.md b/docs/deepvariant-pacbio-model-case-study.md
@@ -65,7 +65,7 @@ gcloud compute ssh "${USER}-cpu" --zone "us-west1-b"
 1.  Download and run the case study script:
 
 ```shell
-curl https://raw.githubusercontent.com/google/deepvariant/r0.8/scripts/run_pacbio_case_study_docker.sh | bash
+curl https://raw.githubusercontent.com/google/deepvariant/r0.9/scripts/run_pacbio_case_study_docker.sh | bash
 ```
 
 ## Script description

diff --git a/docs/deepvariant-quick-start.md b/docs/deepvariant-quick-start.md
@@ -183,7 +183,7 @@ Benchmarking Summary:
 [BAM]: http://genome.sph.umich.edu/wiki/BAM
 [BWA]: https://academic.oup.com/bioinformatics/article/25/14/1754/225615/Fast-and-accurate-short-read-alignment-with
 [docker build]: https://docs.docker.com/engine/reference/commandline/build/
-[Dockerfile]: https://github.com/google/deepvariant/blob/r0.8/Dockerfile
+[Dockerfile]: https://github.com/google/deepvariant/blob/r0.9/Dockerfile
 [External Solutions]: https://github.com/google/deepvariant#external-solutions
 [FASTA]: https://en.wikipedia.org/wiki/FASTA_format
 [Quick Start in r0.7]: https://github.com/google/deepvariant/blob/r0.7/docs/deepvariant-quick-start.md

diff --git a/docs/deepvariant-tpu-training-case-study.md b/docs/deepvariant-tpu-training-case-study.md
@@ -217,7 +217,7 @@ Get the code that shuffles:
 
 ```
 mkdir -p ${SHUFFLE_SCRIPT_DIR}
-wget https://raw.githubusercontent.com/google/deepvariant/r0.8/tools/shuffle_tfrecords_beam.py -O ${SHUFFLE_SCRIPT_DIR}/shuffle_tfrecords_beam.py
+wget https://raw.githubusercontent.com/google/deepvariant/r0.9/tools/shuffle_tfrecords_beam.py -O ${SHUFFLE_SCRIPT_DIR}/shuffle_tfrecords_beam.py
 ```
 
 Validation set is small, so we will just shuffle locally using DirectRunner:

diff --git a/scripts/run_deepvariant.py b/scripts/run_deepvariant.py
@@ -34,7 +34,7 @@
 using the binaries in the Docker image.
 
 For more details, see:
-https://github.com/google/deepvariant/blob/r0.8/docs/deepvariant-quick-start.md
+https://github.com/google/deepvariant/blob/r0.9/docs/deepvariant-quick-start.md
 """
 
 from __future__ import absolute_import