Maintenance mode (#83)

* put the app in maintenance mode

* fix trimai's download url

Dockerfile

@@ -30,8 +30,8 @@ RUN pip3 install invoke
 # RUN /src/aligntools-setup.sh
 
 RUN mkdir -p /src
-RUN curl -o /src/trimal.tar.gz http://trimal.cgenomics.org/_media/trimal.v1.2rev59.tar.gz
-RUN cd /src && tar xzf trimal.tar.gz && cd trimAl/source && make && cp trimal readal /usr/local/bin
+RUN curl -L -o /src/trimal.tar.gz https://github.com/inab/trimal/archive/refs/tags/v1.4.1.tar.gz
+RUN cd /src && tar xzf trimal.tar.gz && cd trimal-1.4.1/source && make && cp trimal readal /usr/local/bin
 
 RUN curl -o /src/mafft.tar.gz https://mafft.cbrc.jp/alignment/software/mafft-7.475-with-extensions-src.tgz
 RUN cd /src && tar xzf mafft.tar.gz && cd mafft-7.475-with-extensions/core && make clean && make && make install

app/controllers/application_controller.rb

@@ -2,4 +2,11 @@ class ApplicationController < ActionController::Base
   # Prevent CSRF attacks by raising an exception.
   # For APIs, you may want to use :null_session instead.
   protect_from_forgery with: :exception
+
+  before_action :maintanence_mode
+
+  # TODO: remove once we upgrade Rails and so on.
+  def maintanence_mode
+    render(partial: 'maintenance')
+  end
 end

app/views/application/_maintenance.html.erb

@@ -0,0 +1 @@
+<h1 class="text-center">Phylogatr is inoperable due to ongoing maintenance.  We expect to have it online by the end of February 2025.</h1>