funguild work w/out -o and add release docker build

.github/workflows/release-triggered.yml

@@ -0,0 +1,52 @@
+# This is a basic workflow to help you get started with Actions
+
+name: Release amptk to Docker Hub
+
+# Controls when the action will run.
+on:
+  repository_dispatch:
+    types: [docker-hub-release-complete]
+
+  # Allows you to run this workflow manually from the Actions tab
+  workflow_dispatch:
+
+# A workflow run is made up of one or more jobs that can run sequentially or in parallel
+jobs:
+  # This workflow contains a single job called "build"
+  build:
+    # The type of runner that the job will run on
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Check Out Repo
+        uses: actions/checkout@v2
+
+      - name: Get release
+        id: get_release
+        uses: kaliber5/action-get-release@v1
+        with:
+          token: ${{ github.token }}
+          latest: true
+
+      - name: Login to Docker Hub
+        uses: docker/login-action@v1
+        with:
+          username: ${{ secrets.DOCKER_HUB_USERNAME }}
+          password: ${{ secrets.DOCKER_HUB_ACCESS_TOKEN }}
+
+      - name: Set up Docker Buildx
+        id: buildx
+        uses: docker/setup-buildx-action@v1
+
+      - name: Build and push
+        id: docker_build
+        uses: docker/build-push-action@v2
+        with:
+          context: ./
+          file: ./Dockerfile2
+          push: true
+          tags: nextgenusfs/amptk:${{ steps.get_release.outputs.tag_name }}
+
+      - name: Image digest
+        run: echo ${{ steps.docker_build.outputs.digest }}
+

.github/workflows/release.yml

@@ -0,0 +1,63 @@
+# This is a basic workflow to help you get started with Actions
+
+name: Release base-amptk to Docker Hub
+
+# Controls when the action will run.
+on:
+  release:
+    types: [created]
+
+  # Allows you to run this workflow manually from the Actions tab
+  workflow_dispatch:
+
+# A workflow run is made up of one or more jobs that can run sequentially or in parallel
+jobs:
+  # This workflow contains a single job called "build"
+  build:
+    # The type of runner that the job will run on
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Check Out Repo
+        uses: actions/checkout@v2
+
+      - name: Get release
+        id: get_release
+        uses: kaliber5/action-get-release@v1
+        with:
+          token: ${{ github.token }}
+          latest: true
+
+      - name: Test git release scrapper
+        id: test_release
+        run: echo ${{ steps.get_release.outputs.tag_name }}
+
+      - name: Login to Docker Hub
+        uses: docker/login-action@v1
+        with:
+          username: ${{ secrets.DOCKER_HUB_USERNAME }}
+          password: ${{ secrets.DOCKER_HUB_ACCESS_TOKEN }}
+
+      - name: Set up Docker Buildx
+        id: buildx
+        uses: docker/setup-buildx-action@v1
+
+      - name: Build and push
+        id: docker_build
+        uses: docker/build-push-action@v2
+        with:
+          context: ./
+          file: ./Dockerfile
+          push: true
+          tags: nextgenusfs/base-amptk:${{ steps.get_release.outputs.tag_name }}
+
+      - name: Image digest
+        run: echo ${{ steps.docker_build.outputs.digest }}
+
+      - name: Repository Dispatch
+        uses: peter-evans/repository-dispatch@v1
+        with:
+          token: ${{ secrets.REPO_ACCESS_TOKEN }}
+          repository: nextgenusfs/amptk
+          event-type: docker-hub-release-complete
+          client-payload: '{"ref": "${{ github.ref }}", "sha": "${{ github.sha }}"}'

amptk/funguild.py

@@ -92,14 +92,16 @@ def main(args):
         description='''run FUNGuild analysis of OTU table''',
         epilog="""Written by Jon Palmer (2021) nextgenusfs@gmail.com""")
     parser.add_argument('-i','--input', required=True, help='OTU table with Taxonomy from AMPtk')
-    parser.add_argument('-o','--out', required=True, help='Output OTU table')
+    parser.add_argument('-o','--out', help='Output OTU table')
     parser.add_argument('-d','--database', default='fungi', help='Option not used, here for compatibility')
     parser.add_argument('-u','--url',
                         default='https://mycoportal.org/fdex/services/api/db_return.php?dbReturn=Yes&pp=1',
                         help='FUNGuild API url')
     args=parser.parse_args(args)
 
     # initialize script and log
+    if not args.out:
+        args.out = '{}.funguild.txt'.format(args.input.rsplit('.', 1)[0])
     #remove logfile if exists
     log_name = '{}.funguild.log'.format(args.out.rsplit('.', 1)[0])
     if os.path.isfile(log_name):