From 8dce7c6a5dda73444bca58f99b205341c25a870c Mon Sep 17 00:00:00 2001
From: Janet Gainer-Dewar <jdewar@broadinstitute.org>
Date: Mon, 29 Apr 2024 13:30:10 -0400
Subject: [PATCH 1/3] Upgrade gunicorn

---
 servers/cromwell/requirements.txt | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/servers/cromwell/requirements.txt b/servers/cromwell/requirements.txt
index 05030d67..08f6f6ff 100644
--- a/servers/cromwell/requirements.txt
+++ b/servers/cromwell/requirements.txt
@@ -6,7 +6,7 @@ connexion==2.14.1
 Flask==2.2.5
 gevent==23.9
 greenlet==2.0.2
-gunicorn==20.1.0
+gunicorn==22.0.0
 idna==2.7
 inflection==0.3.1
 itsdangerous==2.1.2

From 59f416d5727f254a74b0d3e4601916a622cb8c5f Mon Sep 17 00:00:00 2001
From: Janet Gainer-Dewar <jdewar@broadinstitute.org>
Date: Mon, 29 Apr 2024 13:50:24 -0400
Subject: [PATCH 2/3] Give up on standard requirements handling

---
 servers/cromwell/README.md                  | 18 ------------------
 servers/cromwell/requirements-to-freeze.txt |  7 -------
 servers/jm_utils/README.md                  | 15 ---------------
 servers/jm_utils/requirements-to-freeze.txt |  1 -
 4 files changed, 41 deletions(-)
 delete mode 100644 servers/cromwell/requirements-to-freeze.txt
 delete mode 100644 servers/jm_utils/requirements-to-freeze.txt

diff --git a/servers/cromwell/README.md b/servers/cromwell/README.md
index 5e2fd5cb..59589c49 100644
--- a/servers/cromwell/README.md
+++ b/servers/cromwell/README.md
@@ -371,21 +371,3 @@ To run unit and integration tests on the python-flask app, install
 cd servers/cromwell
 tox -- -s
 ```
-
-## Generating `requirements.txt`
-
-`requirements.txt` is autogenerated from `requirements-to-freeze.txt`. The
-latter lists only direct dependencies. To regenerate run:
-```
-virtualenv --python=/usr/bin/python2 /tmp/cromwell-server-requirements
-source /tmp/cromwell-server-requirements/bin/activate
-```
-Then, from the cromwell directory in this repo:
-```
-pip install -r requirements-to-freeze.txt
-pip freeze | sort -f | sed 's/^jm-utils.*/\.\.\/jm_utils/g' > requirements.txt
-deactivate
-```
-
-The sed command above replaces jm-utils=x.y.z with ../jm_utils, which is required
-to allow pip to install from the local jm_utils directory.
diff --git a/servers/cromwell/requirements-to-freeze.txt b/servers/cromwell/requirements-to-freeze.txt
deleted file mode 100644
index e4661503..00000000
--- a/servers/cromwell/requirements-to-freeze.txt
+++ /dev/null
@@ -1,7 +0,0 @@
-connexion == 1.1.13
-python_dateutil == 2.6.0
-typing == 3.5.2.2
-setuptools >= 65.4.1
-gevent==23.9
-gunicorn==19.8.1
-../jm_utils
diff --git a/servers/jm_utils/README.md b/servers/jm_utils/README.md
index 2eea58a1..7d802336 100644
--- a/servers/jm_utils/README.md
+++ b/servers/jm_utils/README.md
@@ -35,18 +35,3 @@ To run unit tests, install
 cd servers/jm_utils
 tox -- -s
 ```
-
-## Generating `requirements.txt`
-
-`requirements.txt` is autogenerated from `requirements-to-freeze.txt`. The
-latter lists only direct dependencies. To regenerate, run:
-```
-virtualenv --python=/usr/bin/python2 /tmp/jm-utils-requirements
-source /tmp/jm-utils-requirements/bin/activate
-pip install -r servers/jm_utils/requirements-to-freeze.txt
-pip freeze > servers/jm_utils/requirements.txt
-deactivate
-```
-
-Any library dependencies also need to be added to the `REQUIRES` list in
-`setup.py`
diff --git a/servers/jm_utils/requirements-to-freeze.txt b/servers/jm_utils/requirements-to-freeze.txt
deleted file mode 100644
index af44f198..00000000
--- a/servers/jm_utils/requirements-to-freeze.txt
+++ /dev/null
@@ -1 +0,0 @@
-pytz

From 3b6167a0e00dc0d33de21bda6926646c987d1d41 Mon Sep 17 00:00:00 2001
From: Janet Gainer-Dewar <jdewar@broadinstitute.org>
Date: Mon, 29 Apr 2024 13:51:18 -0400
Subject: [PATCH 3/3] Adjust for multiple IP addresses

---
 TERRA_QUICKSTART.md | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/TERRA_QUICKSTART.md b/TERRA_QUICKSTART.md
index 005b080b..48925178 100644
--- a/TERRA_QUICKSTART.md
+++ b/TERRA_QUICKSTART.md
@@ -32,7 +32,7 @@ $ export CROMWELL_URL="http://192.XXX.Y.ZZZ:8000/api/workflows/v1"
 ```
 or the one-liner:
 ```
-$ export CROMWELL_URL="http://$(ifconfig | grep inet | grep broadcast | cut -d ' ' -f 2):8000/api/workflows/v1"
+$ export CROMWELL_URL="http://$(ifconfig | grep inet | grep broadcast | head -n 1 | cut -d ' ' -f 2):8000/api/workflows/v1"
 ```
 
 ### Start JobManager