Fix: missed doc in setup

Mod: adding pid file
New: cli kill command

anisotropy/core/cli.py

@@ -147,6 +147,12 @@ def compute(stage, nprocs, force, update, params, path):
     for param in params:
         args.update(param)
 
+    ###
+    logger.info("Writing pid ...")
+
+    with open(os.path.join(path, "anisotropy.pid"), "w") as io:
+        io.write(str(os.getpid()))
+
     ###
     model = Anisotropy()
     model.db = Database(env["db_name"], env["db_path"]) 
@@ -247,6 +253,33 @@ def compute(stage, nprocs, force, update, params, path):
         parallel(nprocs, queueargs, computeCase)
 
 
+@anisotropy.command(
+    help = "Kill process by pid file"
+)
+@click.option(
+    "-P", "--path", "path",
+    default = os.getcwd(),
+    help = "Specify directory to use (instead of cwd)"
+)
+@click.argument("pidfile")
+def kill(path, pidfile):
+    from anisotropy.salomepl.utils import SalomeManager
+
+    try:
+        with open(os.path.join(path, pidfile), "r") as io:
+            pid = io.read()
+
+        os.kill(int(pid), 9)
+
+    except FileNotFoundError:
+        click.echo(f"Unknown file { pidfile }")
+
+    except ProcessLookupError:
+        click.echo(f"Cannot find process with pid { pid }")
+
+    # TODO: killall method kills all salome instances. Not a good way
+    SalomeManager().killall()
+
 @anisotropy.command(
     help = "! Not a user command"
 )

anisotropy/core/main.py

@@ -257,7 +257,7 @@ class Anisotropy(object):
             *salomeargs, 
             timeout = self.env["salome_timeout"],
             root = self.env["ROOT"],
-            logpath = os.path.join(casepath, "logs") 
+            logpath = casepath
         )
 
 

anisotropy/salomepl/utils.py

@@ -59,6 +59,10 @@ class SalomeManager(object):
         return self.runner(["salome", "kill", str(self.__port or port)])
 
 
+    def killall(self):
+        return self.runner(["salome", "killall"])
+
+
     def execute(self, scriptpath: str, *args, root: str = None, logpath: str = None, timeout: int = None, **kwargs):
 
         if not root:
@@ -97,6 +101,8 @@ class SalomeManager(object):
             returncode = lastproc.returncode
 
         if logpath:
+            os.makedirs(logpath, exist_ok = True)
+
             with open(os.path.join(logpath, "salome.log"), "wb") as io:
                 io.write(out)
                 io.write(err)

setup.py

@@ -50,7 +50,10 @@ def main():
         ],
 
         data_files = [
-            ("share/doc/anisotropy", findall("docs"))
+            ("share/doc/anisotropy", findall("docs")),
+            ("share/doc/anisotropy/source", findall("docs/source")),
+            ("share/doc/anisotropy/source/static", findall("docs/source/static")),
+            ("share/doc/anisotropy/source/notes", findall("docs/source/notes"))
         ],
 
         package_data = {