1. vsclust
  2. bitbucket-pipelines.yml
Browse code

temporarily removed biolib as not working with R package version

Veit Schwammle authored on 23/11/2022 17:11:44
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ af7fbb2
... ... 
@@ -18,8 +18,8 @@ pipelines:
18 18 
           # push the new Docker image to the Docker registry
19 19 
           - docker push $IMAGE_NAME
20 20 
           # push a new version of the webserver to biolib
21 
-          - pip3 install pybiolib
22 
-          - cd webserver && biolib push SDU/VSClust
21 
+          #- pip3 install pybiolib
22 
+          #- cd webserver && biolib push SDU/VSClust
23 23 
   tags:
24 24 
     release-*:
25 25 
     - step:
... ... 
@@ -37,10 +37,10 @@ pipelines:
37 37 
           # push the new Docker image to the Docker registry
38 38 
           - docker push $IMAGE_NAME
39 39 
           # push a new version of the webserver to biolib
40 
-          - pip3 install pybiolib
41 
-          - cd webserver && biolib push SDU/VSClust
40 
+          #- pip3 install pybiolib
41 
+          #- cd webserver && biolib push SDU/VSClust
42 42
43 43 
 definitions:
44 44 
   services:
45 45 
     docker:
46 
-      memory: 2048
47 46 
\ No newline at end of file
47 
+      memory: 2048
Browse code

fix docker image name

jeppe-biolib authored on 27/06/2021 15:00:53
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ 6799bb7
... ... 
@@ -7,8 +7,6 @@ pipelines:
7 7 
         services:
8 8 
           - docker
9 9 
         script:
10 
-          - pip3 install pybiolib
11 
-          - cd webserver && biolib push SDU/VSClust
12 10 
           - export DOCKER_HUB_USERNAME=veitveit
13 11 
           - export DOCKER_HUB_PASSWORD=$dockerpasswd
14 12 
           - export IMAGE_NAME=veitveit/vsclust
... ... 
@@ -19,6 +17,9 @@ pipelines:
19 17 
           # authenticate with the Docker Hub registry
20 18 
           # push the new Docker image to the Docker registry
21 19 
           - docker push $IMAGE_NAME
20 
+          # push a new version of the webserver to biolib
21 
+          - pip3 install pybiolib
22 
+          - cd webserver && biolib push SDU/VSClust
22 23 
   tags:
23 24 
     release-*:
24 25 
     - step:
... ... 
@@ -35,6 +36,9 @@ pipelines:
35 36 
           # authenticate with the Docker Hub registry
36 37 
           # push the new Docker image to the Docker registry
37 38 
           - docker push $IMAGE_NAME
39 
+          # push a new version of the webserver to biolib
40 
+          - pip3 install pybiolib
41 
+          - cd webserver && biolib push SDU/VSClust
38 42
39 43 
 definitions:
40 44 
   services:
Browse code

test

jeppe-biolib authored on 27/06/2021 14:23:55
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ a2b090f
... ... 
@@ -8,6 +8,7 @@ pipelines:
8 8 
           - docker
9 9 
         script:
10 10 
           - pip3 install pybiolib
11 
+          - cd webserver && biolib push SDU/VSClust
11 12 
           - export DOCKER_HUB_USERNAME=veitveit
12 13 
           - export DOCKER_HUB_PASSWORD=$dockerpasswd
13 14 
           - export IMAGE_NAME=veitveit/vsclust
Browse code

test

jeppe-biolib authored on 27/06/2021 14:21:40
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ 506eac8
... ... 
@@ -1,4 +1,5 @@
1 1 
 # You can specify a custom docker image from Docker Hub as your build environment.
2 
+image: python:3.7.2
2 3
3 4 
 pipelines:
4 5 
   default:
Browse code

install pybiolib

jeppe-biolib authored on 27/06/2021 14:17:15
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ df76671
... ... 
@@ -6,6 +6,7 @@ pipelines:
6 6 
         services:
7 7 
           - docker
8 8 
         script:
9 
+          - pip3 install pybiolib
9 10 
           - export DOCKER_HUB_USERNAME=veitveit
10 11 
           - export DOCKER_HUB_PASSWORD=$dockerpasswd
11 12 
           - export IMAGE_NAME=veitveit/vsclust
Browse code

bitbucket-pipelines.yml edited online with Bitbucket

Veit Schwämmle authored on 22/01/2020 06:15:03
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ 64ea91f
... ... 
@@ -8,7 +8,7 @@ pipelines:
8 8 
         script:
9 9 
           - export DOCKER_HUB_USERNAME=veitveit
10 10 
           - export DOCKER_HUB_PASSWORD=$dockerpasswd
11 
-          - export IMAGE_NAME=veitveit/vsclust:$BITBUCKET_COMMIT
11 
+          - export IMAGE_NAME=veitveit/vsclust
12 12 
           - docker login --username $DOCKER_HUB_USERNAME --password $dockerpasswd
13 13
14 14 
           # build the Docker image (this will use the Dockerfile in the root of the repo)
Browse code

bitbucket-pipelines.yml edited online with Bitbucket

Veit Schwämmle authored on 16/11/2019 08:28:00
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ d5b7206
... ... 
@@ -1,29 +1,38 @@
1 
-# This is a sample build configuration for Docker.
2 
-# Check our guides at https://confluence.atlassian.com/x/O1toN for more examples.
3 
-# Only use spaces to indent your .yml configuration.
4 
-# -----
5 1 
 # You can specify a custom docker image from Docker Hub as your build environment.
6 
-# image: atlassian/default-image:latest
7 
-
8 
-# enable Docker for your repository
9 
-options:
10 
-  docker: true
11 2
12 3 
 pipelines:
13 4 
   default:
14 5 
     - step:
15 
-        script: # Modify the commands below to build your repository.
16 
-          # Set $DOCKER_HUB_USERNAME and $DOCKER_HUB_PASSWORD as environment variables in repository settings
6 
+        services:
7 
+          - docker
8 
+        script:
17 9 
           - export DOCKER_HUB_USERNAME=veitveit
18 10 
           - export DOCKER_HUB_PASSWORD=$dockerpasswd
19 
-          - export IMAGE_NAME=veitveit/vsclust:$BITBUCKET_TAG
11 
+          - export IMAGE_NAME=veitveit/vsclust:$BITBUCKET_COMMIT
12 
+          - docker login --username $DOCKER_HUB_USERNAME --password $dockerpasswd
20 13
14 
+          # build the Docker image (this will use the Dockerfile in the root of the repo)
15 
+          - docker build -t $IMAGE_NAME .
21 16 
           # authenticate with the Docker Hub registry
17 
+          # push the new Docker image to the Docker registry
18 
+          - docker push $IMAGE_NAME
19 
+  tags:
20 
+    release-*:
21 
+    - step:
22 
+        services:
23 
+          - docker
24 
+        script:
25 
+          - export DOCKER_HUB_USERNAME=veitveit
26 
+          - export DOCKER_HUB_PASSWORD=$dockerpasswd
27 
+          - export IMAGE_NAME=veitveit/vsclust:$BITBUCKET_TAG
22 28 
           - docker login --username $DOCKER_HUB_USERNAME --password $dockerpasswd
29 
+
23 30 
           # build the Docker image (this will use the Dockerfile in the root of the repo)
24 31 
           - docker build -t $IMAGE_NAME .
32 
+          # authenticate with the Docker Hub registry
25 33 
           # push the new Docker image to the Docker registry
26 34 
           - docker push $IMAGE_NAME
35 
+
27 36 
 definitions:
28 37 
   services:
29 38 
     docker:
Browse code

bitbucket-pipelines.yml edited online with Bitbucket

Veit Schwämmle authored on 16/11/2019 08:00:08
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ c4792b3
... ... 
@@ -16,7 +16,7 @@ pipelines:
16 16 
           # Set $DOCKER_HUB_USERNAME and $DOCKER_HUB_PASSWORD as environment variables in repository settings
17 17 
           - export DOCKER_HUB_USERNAME=veitveit
18 18 
           - export DOCKER_HUB_PASSWORD=$dockerpasswd
19 
-          - export IMAGE_NAME=veitveit/vsclust:$BITBUCKET_COMMIT
19 
+          - export IMAGE_NAME=veitveit/vsclust:$BITBUCKET_TAG
20 20
21 21 
           # authenticate with the Docker Hub registry
22 22 
           - docker login --username $DOCKER_HUB_USERNAME --password $dockerpasswd
Browse code

corrected bugs and inconsistencies in script running VSClust

veitveit authored on 22/07/2019 16:04:58
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ ac22e58
... ... 
@@ -18,10 +18,10 @@ pipelines:
18 18 
           - export DOCKER_HUB_PASSWORD=$dockerpasswd
19 19 
           - export IMAGE_NAME=veitveit/vsclust:$BITBUCKET_COMMIT
20 20
21 
+          # authenticate with the Docker Hub registry
22 
+          - docker login --username $DOCKER_HUB_USERNAME --password $dockerpasswd
21 23 
           # build the Docker image (this will use the Dockerfile in the root of the repo)
22 24 
           - docker build -t $IMAGE_NAME .
23 
-          # authenticate with the Docker Hub registry
24 
-          - docker login --username $DOCKER_HUB_USERNAME --password $DOCKER_HUB_PASSWORD
25 25 
           # push the new Docker image to the Docker registry
26 26 
           - docker push $IMAGE_NAME
27 27 
 definitions:
Browse code

bitbucket-pipelines.yml edited online with Bitbucket

Veit Schwämmle authored on 12/06/2019 06:23:54
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ 624a7d5
... ... 
@@ -23,4 +23,8 @@ pipelines:
23 23 
           # authenticate with the Docker Hub registry
24 24 
           - docker login --username $DOCKER_HUB_USERNAME --password $DOCKER_HUB_PASSWORD
25 25 
           # push the new Docker image to the Docker registry
26 
-          - docker push $IMAGE_NAME
27 26 
\ No newline at end of file
27 
+          - docker push $IMAGE_NAME
28 
+definitions:
29 
+  services:
30 
+    docker:
31 
+      memory: 2048
28 32 
\ No newline at end of file
Browse code

commented remote calling

veitveit authored on 24/01/2019 07:45:51
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ 3fa5ca6
... ... 
@@ -15,7 +15,7 @@ pipelines:
15 15 
         script: # Modify the commands below to build your repository.
16 16 
           # Set $DOCKER_HUB_USERNAME and $DOCKER_HUB_PASSWORD as environment variables in repository settings
17 17 
           - export DOCKER_HUB_USERNAME=veitveit
18 
-          - export DOCKER_HUB_PASSWORD=ttmama11
18 
+          - export DOCKER_HUB_PASSWORD=$dockerpasswd
19 19 
           - export IMAGE_NAME=veitveit/vsclust:$BITBUCKET_COMMIT
20 20
21 21 
           # build the Docker image (this will use the Dockerfile in the root of the repo)
Browse code

bitbucket-pipelines.yml edited online with Bitbucket

Veit Schwämmle authored on 06/04/2018 06:52:45
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ 0c869b2
... ... 
@@ -16,7 +16,7 @@ pipelines:
16 16 
           # Set $DOCKER_HUB_USERNAME and $DOCKER_HUB_PASSWORD as environment variables in repository settings
17 17 
           - export DOCKER_HUB_USERNAME=veitveit
18 18 
           - export DOCKER_HUB_PASSWORD=ttmama11
19 
-          - export IMAGE_NAME=veitveit/vsclust:$BITBUCKET_TAG
19 
+          - export IMAGE_NAME=veitveit/vsclust:$BITBUCKET_COMMIT
20 20
21 21 
           # build the Docker image (this will use the Dockerfile in the root of the repo)
22 22 
           - docker build -t $IMAGE_NAME .
Browse code

Add tags to docker images

Veit Schwämmle authored on 06/04/2018 06:50:40
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ 4b2a3d0
... ... 
@@ -16,7 +16,7 @@ pipelines:
16 16 
           # Set $DOCKER_HUB_USERNAME and $DOCKER_HUB_PASSWORD as environment variables in repository settings
17 17 
           - export DOCKER_HUB_USERNAME=veitveit
18 18 
           - export DOCKER_HUB_PASSWORD=ttmama11
19 
-          - export IMAGE_NAME=veitveit/vsclust
19 
+          - export IMAGE_NAME=veitveit/vsclust:$BITBUCKET_TAG
20 20
21 21 
           # build the Docker image (this will use the Dockerfile in the root of the repo)
22 22 
           - docker build -t $IMAGE_NAME .
Browse code

bitbucket-pipelines.yml edited online with Bitbucket

Veit Schwämmle authored on 08/11/2017 09:05:02
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ 19b77f5
... ... 
@@ -14,11 +14,13 @@ pipelines:
14 14 
     - step:
15 15 
         script: # Modify the commands below to build your repository.
16 16 
           # Set $DOCKER_HUB_USERNAME and $DOCKER_HUB_PASSWORD as environment variables in repository settings
17 
-          - export IMAGE_NAME=vsclust
17 
+          - export DOCKER_HUB_USERNAME=veitveit
18 
+          - export DOCKER_HUB_PASSWORD=ttmama11
19 
+          - export IMAGE_NAME=veitveit/vsclust
18 20
19 21 
           # build the Docker image (this will use the Dockerfile in the root of the repo)
20 22 
           - docker build -t $IMAGE_NAME .
21 23 
           # authenticate with the Docker Hub registry
22 
-#          - docker login --username $DOCKER_HUB_USERNAME --password $DOCKER_HUB_PASSWORD
24 
+          - docker login --username $DOCKER_HUB_USERNAME --password $DOCKER_HUB_PASSWORD
23 25 
           # push the new Docker image to the Docker registry
24 
-    #      - docker push $IMAGE_NAME
25 26 
\ No newline at end of file
27 
+          - docker push $IMAGE_NAME
26 28 
\ No newline at end of file
Browse code

bitbucket-pipelines.yml edited online with Bitbucket

Veit Schwämmle authored on 18/09/2017 11:00:43
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ e943540
... ... 
@@ -14,7 +14,7 @@ pipelines:
14 14 
     - step:
15 15 
         script: # Modify the commands below to build your repository.
16 16 
           # Set $DOCKER_HUB_USERNAME and $DOCKER_HUB_PASSWORD as environment variables in repository settings
17 
-          - export IMAGE_NAME=VSClust
17 
+          - export IMAGE_NAME=vsclust
18 18
19 19 
           # build the Docker image (this will use the Dockerfile in the root of the repo)
20 20 
           - docker build -t $IMAGE_NAME .
Browse code

Initial Bitbucket Pipelines configuration

Veit Schwämmle authored on 18/09/2017 10:57:31
Showing 1 changed files
bitbucket-pipelines.yml
History View file @ 3e7425a
1 1 
new file mode 100644
... ... 
@@ -0,0 +1,24 @@
1 
+# This is a sample build configuration for Docker.
2 
+# Check our guides at https://confluence.atlassian.com/x/O1toN for more examples.
3 
+# Only use spaces to indent your .yml configuration.
4 
+# -----
5 
+# You can specify a custom docker image from Docker Hub as your build environment.
6 
+# image: atlassian/default-image:latest
7 
+
8 
+# enable Docker for your repository
9 
+options:
10 
+  docker: true
11 
+
12 
+pipelines:
13 
+  default:
14 
+    - step:
15 
+        script: # Modify the commands below to build your repository.
16 
+          # Set $DOCKER_HUB_USERNAME and $DOCKER_HUB_PASSWORD as environment variables in repository settings
17 
+          - export IMAGE_NAME=VSClust
18 
+
19 
+          # build the Docker image (this will use the Dockerfile in the root of the repo)
20 
+          - docker build -t $IMAGE_NAME .
21 
+          # authenticate with the Docker Hub registry
22 
+#          - docker login --username $DOCKER_HUB_USERNAME --password $DOCKER_HUB_PASSWORD
23 
+          # push the new Docker image to the Docker registry
24 
+    #      - docker push $IMAGE_NAME
0 25 
\ No newline at end of file