Test commit for new RTD-based documentation

jakobilab · Feb 22, 2018 · 6db6c4c · 6db6c4c
1 parent c731647
commit 6db6c4c
Showing 1 changed file with 47 additions and 47 deletions.
diff --git a/setup.py b/setup.py
@@ -73,53 +73,53 @@ def run(self):
         print("We'll install everything for you from GitHub and CRAN for you if you like.")
         print("")
 
-        answer = query_yes_no("Do you want to continue the automatic dependency installation?\n"
-                              "-> \"n\" will only install the circtools base package\n"
-                              "-> CTRL-C will abort the installation\n")
-        if answer:
-            subprocess.check_call(["sh", "scripts/external_install.sh"])
-
-            # step 2: update $PATH
-            print("In order for circtools to be globally callable, we would add the installation folder to the $PATH")
-            print("variable. Would you like us to do that?")
-
-            answer = query_yes_no("Update $PATH in .bashrc?")
-            if answer:
-                print("Running update script...")
-                subprocess.check_call(["sh", "scripts/add_to_bashrc.sh"])
-            else:
-                print("Okay. Please update the $PATH variable yourself, otherwise you may not be able to run circtools.")
-            sleep(5)
-
-            print("")
-
-            # step 3: create .Renviron file
-            print("In order for the circtools primer design module to run, we need to install some R modules.")
-            print("Please make sure R >= 3.4.0 is installed.")
-            print("Should we update the R package location in order to install package as user?")
-
-            answer = query_yes_no("Update R_LIB in .Renviron")
-            if answer:
-                print("Running update script...")
-                subprocess.check_call(["sh", "scripts/create_r_environ.sh"])
-            else:
-                print("Okay. If the R library path is not writeable the installation will most probably fail.")
-            sleep(5)
-
-            print("")
-
-            # step 4: install OligoArrayAux
-            print("The circtools primer module also requires the software \"OligoArrayAux\".")
-            print("Should we install the software for you?")
-            print("If you choose yes OligoArrayAux will be installed into $HOME/.local/.")
-
-            answer = query_yes_no("Install OligoArrayAux?")
-            if answer:
-                print("Running installer script...")
-                subprocess.check_call(["sh", "scripts/install_oligo_array_aux.sh"])
-            else:
-                print("Okay. Please install OligoArrayAux yourself. Otherwise the primer module will not be functional.")
-            sleep(5)
+        # answer = query_yes_no("Do you want to continue the automatic dependency installation?\n"
+        #                       "-> \"n\" will only install the circtools base package\n"
+        #                       "-> CTRL-C will abort the installation\n")
+        # if answer:
+        #     subprocess.check_call(["sh", "scripts/external_install.sh"])
+        #
+        #     # step 2: update $PATH
+        #     print("In order for circtools to be globally callable, we would add the installation folder to the $PATH")
+        #     print("variable. Would you like us to do that?")
+        #
+        #     answer = query_yes_no("Update $PATH in .bashrc?")
+        #     if answer:
+        #         print("Running update script...")
+        #         subprocess.check_call(["sh", "scripts/add_to_bashrc.sh"])
+        #     else:
+        #         print("Okay. Please update the $PATH variable yourself, otherwise you may not be able to run circtools.")
+        #     sleep(5)
+        #
+        #     print("")
+        #
+        #     # step 3: create .Renviron file
+        #     print("In order for the circtools primer design module to run, we need to install some R modules.")
+        #     print("Please make sure R >= 3.4.0 is installed.")
+        #     print("Should we update the R package location in order to install package as user?")
+        #
+        #     answer = query_yes_no("Update R_LIB in .Renviron")
+        #     if answer:
+        #         print("Running update script...")
+        #         subprocess.check_call(["sh", "scripts/create_r_environ.sh"])
+        #     else:
+        #         print("Okay. If the R library path is not writeable the installation will most probably fail.")
+        #     sleep(5)
+        #
+        #     print("")
+        #
+        #     # step 4: install OligoArrayAux
+        #     print("The circtools primer module also requires the software \"OligoArrayAux\".")
+        #     print("Should we install the software for you?")
+        #     print("If you choose yes OligoArrayAux will be installed into $HOME/.local/.")
+        #
+        #     answer = query_yes_no("Install OligoArrayAux?")
+        #     if answer:
+        #         print("Running installer script...")
+        #         subprocess.check_call(["sh", "scripts/install_oligo_array_aux.sh"])
+        #     else:
+        #         print("Okay. Please install OligoArrayAux yourself. Otherwise the primer module will not be functional.")
+        #     sleep(5)
 
         install.run(self)
         # place for post install commands