From 873b075485c0114674d1c37a42b6a6180423f8ae Mon Sep 17 00:00:00 2001
From: Gene Hsu <gene.hsu@alleninstitute.org>
Date: Wed, 8 May 2019 19:44:25 +0000
Subject: [PATCH 1/3] Make shebang line use /usr/bin/env

---
 bin/couchdb/generate_design_docs.js | 2 +-
 bin/couchdb/new_couch_user.js       | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/bin/couchdb/generate_design_docs.js b/bin/couchdb/generate_design_docs.js
index 9689aa39..f596ff14 100755
--- a/bin/couchdb/generate_design_docs.js
+++ b/bin/couchdb/generate_design_docs.js
@@ -1,4 +1,4 @@
-#!/usr/bin/node
+#!/usr/bin/env node
 
 // Scan the current directory for Javascript files that contain
 // CouchDB design documents. Such files will have the following
diff --git a/bin/couchdb/new_couch_user.js b/bin/couchdb/new_couch_user.js
index a788b1c2..7de01f8e 100755
--- a/bin/couchdb/new_couch_user.js
+++ b/bin/couchdb/new_couch_user.js
@@ -1,4 +1,4 @@
-#!/usr/bin/node
+#!/usr/bin/env node
 
 var async = require('async');
 var commander = require('commander');

From 6680b7bcf1d2a1290a978a5345ddbf4105bcb4e4 Mon Sep 17 00:00:00 2001
From: Gene Hsu <gene.hsu@alleninstitute.org>
Date: Wed, 8 May 2019 19:45:07 +0000
Subject: [PATCH 2/3] Use the correct console.error method

---
 test/node-insert.js | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/test/node-insert.js b/test/node-insert.js
index 0d2f1bc3..229ee663 100644
--- a/test/node-insert.js
+++ b/test/node-insert.js
@@ -130,7 +130,7 @@ describe('node-insert', function() {
                 if (inserted) {
                     tutils.delete_node(node_id, auth, function(err) {
                         if (err) {
-                            console.err('Problem deleting inserted node: ', err);
+                            console.error('Problem deleting inserted node: ', err);
                         }
                     });
                 }
@@ -327,7 +327,7 @@ describe('node-insert', function() {
                     // invalid, but if we DID insert anyway (perhaps due to a bug),
                     // then we clean up after ourselves by deleting.
                     tutils.delete_node(node_id, auth, function(err) {
-                        console.err('Problem deleting inserted node: ', err);
+                        console.error('Problem deleting inserted node: ', err);
                     });
                 }
 

From 76fa619a104cee8149173e33b982e313084462e2 Mon Sep 17 00:00:00 2001
From: Gene Hsu <gene.hsu@alleninstitute.org>
Date: Tue, 14 May 2019 18:12:20 +0000
Subject: [PATCH 3/3] Fix new_namespace script to make a correct namespace
 directory

---
 bin/new_namespace | 57 ++++++++++++++++++++++++++++++++++++-----------
 1 file changed, 44 insertions(+), 13 deletions(-)

diff --git a/bin/new_namespace b/bin/new_namespace
index 74234c8d..5e42dba1 100755
--- a/bin/new_namespace
+++ b/bin/new_namespace
@@ -1,27 +1,58 @@
 #!/bin/bash
 
-# Determine the path to this script
-ABSPATH="$(cd "${0%/*}" 2>/dev/null; echo "$PWD"/"${0##*/}")"
-DIR=`dirname $ABSPATH`
+function usage {
+    echo "$0 <directory> <namespace_name>" >&2
+    echo >&2
+    echo "This script creates an OSDF namespace in a directory. The directory" >&2
+    echo "should be the working namespace directory of the OSDF server." >&2
+    echo >&2
+    echo "e.g. /usr/src/app/working/namespaces" >&2
+    echo >&2
+    echo "The namespace_name parameter must not already exist in the namespace directory." >&2
+}
+
+DIR=$1
+NS_NAME=$2
 
-NS_NAME=$1
+if [ -z $DIR ]; then
+    echo "A directory parameter must be specified." >&2
+    usage
+    exit 1
+fi
 
 if [ -z $NS_NAME ]; then
-    echo "$0 <namespace_name>" >&2
-    exit 1;
+    echo "A namespace name parameter must be specified." >&2
+    usage
+    exit 1
+fi
+
+if [ ! "${DIR##*/}" = "namespaces" ]; then
+    echo "The directory parameter must end in \`namespaces\`." >&2
+    echo
+    usage
+    exit 1
+fi
+
+if [ ! -e $DIR ]; then
+    echo "Namespace directory <<$DIR>> must exist." >&2
+    echo
+    usage
+    exit 2;
 fi
 
-if [ -d "$DIR/namespaces/$NS_NAME" ]; then
-    echo "It appears that this namespace already exists." >&2
+if [ -e "$DIR/$NS_NAME" ]; then
+    echo "File with name <<$NS_NAME>> already exists within the namespace directory." >&2
+    echo
+    usage
     exit 2;
 fi
 
-mkdir "$DIR/namespaces/$NS_NAME" && \
-mkdir "$DIR/namespaces/$NS_NAME/aux" && \
-mkdir "$DIR/namespaces/$NS_NAME/schemas" && \
-mkdir "$DIR/namespaces/$NS_NAME/vocabs"
+mkdir "$DIR/$NS_NAME" && \
+mkdir "$DIR/$NS_NAME/aux" && \
+mkdir "$DIR/$NS_NAME/schemas" && \
+mkdir "$DIR/$NS_NAME/acls"
 
-INFO_JSON="$DIR/namespaces/$NS_NAME/info.json"
+INFO_JSON="$DIR/$NS_NAME/info.json"
 cat > $INFO_JSON <<Endofmessage
 {
   "$NS_NAME": {