def IMPApplication(
env,
name,
authors,
brief,
overview,
version=None,
publications=None,
license="standard",
required_modules=[],
optional_dependencies=[],
required_dependencies=[],
python=True,
):
if env.GetOption("help"):
return
lkname = "application_" + name.replace(" ", "_").replace(":", "_")
pre = "\page " + lkname + " " + name
nenv = utility.configure_application(
env,
name,
"\\ref " + lkname + ' "' + name + '"',
version,
required_modules=required_modules,
optional_dependencies=optional_dependencies,
required_dependencies=required_dependencies,
)
if nenv:
if nenv["IMP_PASS"] == "RUN":
doc.add_doc_page(env, pre, authors, version, brief, overview, publications, license)
env = environment.get_bin_environment(nenv)
scons_tools.data.get(env).add_to_alias("all", env.Alias(name))
for d in scons_tools.paths.get_sconscripts(env):
env.SConscript(d, exports=["env"])
return env
else:
return None
def IMPSystem(env, name=None, version=None,
authors=[],
brief="", overview="",
publications=None,
license="standard",
required_modules=[],
optional_dependencies=[],
required_dependencies=[],
extra_data=[],
testable=False,
parallelizable=False,
last_imp_version="unknown",
python=True):
if not name:
name= Dir(".").abspath.split("/")[-1]
if env.GetOption('help'):
return
dirs = scons_tools.paths.get_sconscripts(env)
local_module=False
for d in dirs:
env.SConscript(d, exports=['env'])
(nenv, version, found_optional_modules, found_optional_dependencies) =\
utility.configure(env, name, "system", version,
required_modules=required_modules,
optional_dependencies=optional_dependencies,
required_dependencies= required_dependencies)
if not nenv:
data.get(env).add_application(name, ok=False)
return
else:
if nenv["IMP_PASS"] != "RUN":
return
lkname="system_"+name.replace(" ", "_").replace(":", "_")
pre="\page "+lkname+" "+name
extrasections=[]
if testable:
extrasections.append(("Testable", "Yes"))
else:
extrasections.append(("Testable", "No"))
if parallelizable:
extrasections.append(("Parallelizeable", "Yes"))
else:
extrasections.append(("Parallelizeable", "No"))
if last_imp_version != "unknown":
extrasections.append(("Last known good \imp version", last_imp_version))
else:
vtxt= "\n\\section lkgversion Last known good IMP version\n"+\
"unknown"+"\n"
data.get(env).add_system(name, link="\\ref "+lkname+' "'+name+'"',
dependencies=required_dependencies\
+found_optional_dependencies,
unfound_dependencies=[x for x in optional_dependencies
if not x in
found_optional_dependencies],
modules= required_modules+found_optional_modules,
version=version)
for d in dirs:
if str(d).split("/")[0] != "local":
env.SConscript(d, exports=['env'])
scons_tools.data.get(env).add_to_alias("all", env.Alias(name))
env= nenv
for m in required_modules+found_optional_modules:
env.Depends(scons_tools.data.get(env).get_alias(name),
scons_tools.data.get(env).get_alias(m))
if testable:
samples= Glob("sample_[0123456789]*.py")
samples.sort(utility.file_compare)
analysis= Glob("analyze_[0123456789]*.py")
analysis.sort(utility.file_compare)
tt= []
tests = test.add_tests(env, samples+analysis, "system")
for t in tests:
env.Depends(t, scons_tools.data.get(env).get_alias(name))
# link files in build dir
allfiles= []
for suff in ["*.txt", "*.mrc", "*.pdb", ".py", ".param", ".input", ".lib"]:
allfiles.extend(Glob("*/*"+suff))
allfiles.extend(Glob("*"+suff))
for f in allfiles+extra_data:
inst=install.install(env, "biological_systems/"+name+"/", f)
scons_tools.data.get(env).add_to_alias(env.Alias(name), inst)
#if f.path.endswith(".py"):
# example.add_python_example(env, f, f.path)
#env.AlwaysBuild(install)
doc.add_doc_page(env, "\\page "+lkname+" "+name.capitalize(),
authors, version,
brief, overview,
publications,
license, extra_sections=extrasections)
return env