def det_easyconfig_paths(orig_paths):
"""
Determine paths to easyconfig files.
:param orig_paths: list of original easyconfig paths
:return: list of paths to easyconfig files
"""
from_pr = build_option('from_pr')
robot_path = build_option('robot_path')
# list of specified easyconfig files
ec_files = orig_paths[:]
if from_pr is not None:
pr_files = fetch_easyconfigs_from_pr(from_pr)
if ec_files:
# replace paths for specified easyconfigs that are touched in PR
for i, ec_file in enumerate(ec_files):
for pr_file in pr_files:
if ec_file == os.path.basename(pr_file):
ec_files[i] = pr_file
else:
# if no easyconfigs are specified, use all the ones touched in the PR
ec_files = [path for path in pr_files if path.endswith('.eb')]
if ec_files and robot_path:
ignore_subdirs = build_option('ignore_dirs')
if not build_option('consider_archived_easyconfigs'):
ignore_subdirs.append(EASYCONFIGS_ARCHIVE_DIR)
ec_files = locate_files(ec_files,
robot_path,
ignore_subdirs=ignore_subdirs)
return ec_files
def det_easyconfig_paths(orig_paths):
"""
Determine paths to easyconfig files.
:param orig_paths: list of original easyconfig paths
:return: list of paths to easyconfig files
"""
try:
from_prs = [int(x) for x in build_option('from_pr')]
except ValueError:
raise EasyBuildError(
"Argument to --from-pr must be a comma separated list of PR #s.")
robot_path = build_option('robot_path')
# list of specified easyconfig files
ec_files = orig_paths[:]
if from_prs:
pr_files = []
for pr in from_prs:
# path to where easyconfig files should be downloaded is determined via 'pr_paths' build option,
# which corresponds to the list of PR paths returned by alt_easyconfig_paths
pr_files.extend(fetch_easyconfigs_from_pr(pr))
if ec_files:
# replace paths for specified easyconfigs that are touched in PR
for i, ec_file in enumerate(ec_files):
for pr_file in pr_files:
if ec_file == os.path.basename(pr_file):
ec_files[i] = pr_file
else:
# if no easyconfigs are specified, use all the ones touched in the PR
ec_files = [path for path in pr_files if path.endswith('.eb')]
filter_ecs = build_option('filter_ecs')
if filter_ecs:
ec_files = [
ec for ec in ec_files if not any(
fnmatch.fnmatch(ec, filter_spec) for filter_spec in filter_ecs)
]
if ec_files and robot_path:
ignore_subdirs = build_option('ignore_dirs')
if not build_option('consider_archived_easyconfigs'):
ignore_subdirs.append(EASYCONFIGS_ARCHIVE_DIR)
ec_files = locate_files(ec_files,
robot_path,
ignore_subdirs=ignore_subdirs)
return ec_files
def main(args=None, logfile=None, do_build=None, testing=False, modtool=None):
"""
Main function: parse command line options, and act accordingly.
:param args: command line arguments to use
:param logfile: log file to use
:param do_build: whether or not to actually perform the build
:param testing: enable testing mode
"""
register_lock_cleanup_signal_handlers()
# if $CDPATH is set, unset it, it'll only cause trouble...
# see https://github.com/easybuilders/easybuild-framework/issues/2944
if 'CDPATH' in os.environ:
del os.environ['CDPATH']
# purposely session state very early, to avoid modules loaded by EasyBuild meddling in
init_session_state = session_state()
eb_go, cfg_settings = set_up_configuration(args=args,
logfile=logfile,
testing=testing)
options, orig_paths = eb_go.options, eb_go.args
global _log
(build_specs, _log, logfile, robot_path, search_query, eb_tmpdir,
try_to_generate, from_pr_list, tweaked_ecs_paths) = cfg_settings
# load hook implementations (if any)
hooks = load_hooks(options.hooks)
run_hook(START, hooks)
if modtool is None:
modtool = modules_tool(testing=testing)
# check whether any (EasyBuild-generated) modules are loaded already in the current session
modtool.check_loaded_modules()
if options.last_log:
# print location to last log file, and exit
last_log = find_last_log(logfile) or '(none)'
print_msg(last_log, log=_log, prefix=False)
# if easystack is provided with the command, commands with arguments from it will be executed
if options.easystack:
# TODO add general_options (i.e. robot) to build options
orig_paths, general_options = parse_easystack(options.easystack)
if general_options:
raise EasyBuildError(
"Specifying general configuration options in easystack file is not supported yet."
)
# check whether packaging is supported when it's being used
if options.package:
check_pkg_support()
else:
_log.debug(
"Packaging not enabled, so not checking for packaging support.")
# search for easyconfigs, if a query is specified
if search_query:
search_easyconfigs(search_query,
short=options.search_short,
filename_only=options.search_filename,
terse=options.terse)
if options.check_eb_deps:
print_checks(check_easybuild_deps(modtool))
# GitHub options that warrant a silent cleanup & exit
if options.check_github:
check_github()
elif options.install_github_token:
install_github_token(options.github_user,
silent=build_option('silent'))
elif options.close_pr:
close_pr(options.close_pr, motivation_msg=options.close_pr_msg)
elif options.list_prs:
print(list_prs(options.list_prs))
elif options.merge_pr:
merge_pr(options.merge_pr)
elif options.review_pr:
print(
review_pr(pr=options.review_pr,
colored=use_color(options.color),
testing=testing))
elif options.add_pr_labels:
add_pr_labels(options.add_pr_labels)
elif options.list_installed_software:
detailed = options.list_installed_software == 'detailed'
print(
list_software(output_format=options.output_format,
detailed=detailed,
only_installed=True))
elif options.list_software:
print(
list_software(output_format=options.output_format,
detailed=options.list_software == 'detailed'))
elif options.create_index:
print_msg("Creating index for %s..." % options.create_index,
prefix=False)
index_fp = dump_index(options.create_index,
max_age_sec=options.index_max_age)
index = load_index(options.create_index)
print_msg("Index created at %s (%d files)" % (index_fp, len(index)),
prefix=False)
# non-verbose cleanup after handling GitHub integration stuff or printing terse info
early_stop_options = [
options.add_pr_labels,
options.check_eb_deps,
options.check_github,
options.create_index,
options.install_github_token,
options.list_installed_software,
options.list_software,
options.close_pr,
options.list_prs,
options.merge_pr,
options.review_pr,
options.terse,
search_query,
]
if any(early_stop_options):
clean_exit(logfile, eb_tmpdir, testing, silent=True)
# update session state
eb_config = eb_go.generate_cmd_line(add_default=True)
modlist = modtool.list(
) # build options must be initialized first before 'module list' works
init_session_state.update({'easybuild_configuration': eb_config})
init_session_state.update({'module_list': modlist})
_log.debug("Initial session state: %s" % init_session_state)
if options.skip_test_step:
if options.ignore_test_failure:
raise EasyBuildError(
"Found both ignore-test-failure and skip-test-step enabled. "
"Please use only one of them.")
else:
print_warning(
"Will not run the test step as requested via skip-test-step. "
"Consider using ignore-test-failure instead and verify the results afterwards"
)
# determine easybuild-easyconfigs package install path
easyconfigs_pkg_paths = get_paths_for(subdir=EASYCONFIGS_PKG_SUBDIR)
if not easyconfigs_pkg_paths:
_log.warning(
"Failed to determine install path for easybuild-easyconfigs package."
)
if options.install_latest_eb_release:
if orig_paths:
raise EasyBuildError(
"Installing the latest EasyBuild release can not be combined with installing "
"other easyconfigs")
else:
eb_file = find_easybuild_easyconfig()
orig_paths.append(eb_file)
if options.copy_ec:
# figure out list of files to copy + target location (taking into account --from-pr)
orig_paths, target_path = det_copy_ec_specs(orig_paths, from_pr_list)
categorized_paths = categorize_files_by_type(orig_paths)
# command line options that do not require any easyconfigs to be specified
pr_options = options.new_branch_github or options.new_pr or options.new_pr_from_branch or options.preview_pr
pr_options = pr_options or options.sync_branch_with_develop or options.sync_pr_with_develop
pr_options = pr_options or options.update_branch_github or options.update_pr
no_ec_opts = [
options.aggregate_regtest, options.regtest, pr_options, search_query
]
# determine paths to easyconfigs
determined_paths = det_easyconfig_paths(categorized_paths['easyconfigs'])
# only copy easyconfigs here if we're not using --try-* (that's handled below)
copy_ec = options.copy_ec and not tweaked_ecs_paths
if copy_ec or options.fix_deprecated_easyconfigs or options.show_ec:
if options.copy_ec:
# at this point some paths may still just be filenames rather than absolute paths,
# so try to determine full path for those too via robot search path
paths = locate_files(orig_paths, robot_path)
copy_files(paths,
target_path,
target_single_file=True,
allow_empty=False,
verbose=True)
elif options.fix_deprecated_easyconfigs:
fix_deprecated_easyconfigs(determined_paths)
elif options.show_ec:
for path in determined_paths:
print_msg("Contents of %s:" % path)
print_msg(read_file(path), prefix=False)
clean_exit(logfile, eb_tmpdir, testing)
if determined_paths:
# transform paths into tuples, use 'False' to indicate the corresponding easyconfig files were not generated
paths = [(p, False) for p in determined_paths]
elif 'name' in build_specs:
# try to obtain or generate an easyconfig file via build specifications if a software name is provided
paths = find_easyconfigs_by_specs(build_specs,
robot_path,
try_to_generate,
testing=testing)
elif any(no_ec_opts):
paths = determined_paths
else:
print_error(
"Please provide one or multiple easyconfig files, or use software build "
+ "options to make EasyBuild search for easyconfigs",
log=_log,
opt_parser=eb_go.parser,
exit_on_error=not testing)
_log.debug("Paths: %s", paths)
# run regtest
if options.regtest or options.aggregate_regtest:
_log.info("Running regression test")
# fallback: easybuild-easyconfigs install path
regtest_ok = regtest([x for (x, _) in paths] or easyconfigs_pkg_paths,
modtool)
if not regtest_ok:
_log.info("Regression test failed (partially)!")
sys.exit(31) # exit -> 3x1t -> 31
# read easyconfig files
easyconfigs, generated_ecs = parse_easyconfigs(
paths, validate=not options.inject_checksums)
# handle --check-contrib & --check-style options
if run_contrib_style_checks([ec['ec'] for ec in easyconfigs],
options.check_contrib, options.check_style):
clean_exit(logfile, eb_tmpdir, testing)
# verify easyconfig filenames, if desired
if options.verify_easyconfig_filenames:
_log.info("Verifying easyconfig filenames...")
for easyconfig in easyconfigs:
verify_easyconfig_filename(easyconfig['spec'],
easyconfig['ec'],
parsed_ec=easyconfig['ec'])
# tweak obtained easyconfig files, if requested
# don't try and tweak anything if easyconfigs were generated, since building a full dep graph will fail
# if easyconfig files for the dependencies are not available
if try_to_generate and build_specs and not generated_ecs:
easyconfigs = tweak(easyconfigs,
build_specs,
modtool,
targetdirs=tweaked_ecs_paths)
if options.containerize:
# if --containerize/-C create a container recipe (and optionally container image), and stop
containerize(easyconfigs)
clean_exit(logfile, eb_tmpdir, testing)
forced = options.force or options.rebuild
dry_run_mode = options.dry_run or options.dry_run_short or options.missing_modules
keep_available_modules = forced or dry_run_mode or options.extended_dry_run or pr_options
keep_available_modules = keep_available_modules or options.inject_checksums or options.sanity_check_only
# skip modules that are already installed unless forced, or unless an option is used that warrants not skipping
if not keep_available_modules:
retained_ecs = skip_available(easyconfigs, modtool)
if not testing:
for skipped_ec in [
ec for ec in easyconfigs if ec not in retained_ecs
]:
print_msg("%s is already installed (module found), skipping" %
skipped_ec['full_mod_name'])
easyconfigs = retained_ecs
# keep track for which easyconfigs we should set the corresponding module as default
if options.set_default_module:
for easyconfig in easyconfigs:
easyconfig['ec'].set_default_module = True
# determine an order that will allow all specs in the set to build
if len(easyconfigs) > 0:
# resolve dependencies if robot is enabled, except in dry run mode
# one exception: deps *are* resolved with --new-pr or --update-pr when dry run mode is enabled
if options.robot and (not dry_run_mode or pr_options):
print_msg("resolving dependencies ...", log=_log, silent=testing)
ordered_ecs = resolve_dependencies(easyconfigs, modtool)
else:
ordered_ecs = easyconfigs
elif pr_options:
ordered_ecs = None
else:
print_msg("No easyconfigs left to be built.", log=_log, silent=testing)
ordered_ecs = []
if options.copy_ec and tweaked_ecs_paths:
all_specs = [
spec['spec']
for spec in resolve_dependencies(easyconfigs,
modtool,
retain_all_deps=True,
raise_error_missing_ecs=False)
]
tweaked_ecs_in_all_ecs = [
path for path in all_specs
if any(tweaked_ecs_path in path
for tweaked_ecs_path in tweaked_ecs_paths)
]
if tweaked_ecs_in_all_ecs:
# Clean them, then copy them
clean_up_easyconfigs(tweaked_ecs_in_all_ecs)
copy_files(tweaked_ecs_in_all_ecs,
target_path,
allow_empty=False,
verbose=True)
clean_exit(logfile, eb_tmpdir, testing)
# creating/updating PRs
if pr_options:
if options.new_pr:
new_pr(categorized_paths, ordered_ecs)
elif options.new_branch_github:
new_branch_github(categorized_paths, ordered_ecs)
elif options.new_pr_from_branch:
new_pr_from_branch(options.new_pr_from_branch)
elif options.preview_pr:
print(
review_pr(paths=determined_paths,
colored=use_color(options.color)))
elif options.sync_branch_with_develop:
sync_branch_with_develop(options.sync_branch_with_develop)
elif options.sync_pr_with_develop:
sync_pr_with_develop(options.sync_pr_with_develop)
elif options.update_branch_github:
update_branch(options.update_branch_github, categorized_paths,
ordered_ecs)
elif options.update_pr:
update_pr(options.update_pr, categorized_paths, ordered_ecs)
else:
raise EasyBuildError("Unknown PR option!")
# dry_run: print all easyconfigs and dependencies, and whether they are already built
elif dry_run_mode:
if options.missing_modules:
txt = missing_deps(easyconfigs, modtool)
else:
txt = dry_run(easyconfigs, modtool, short=not options.dry_run)
print_msg(txt, log=_log, silent=testing, prefix=False)
elif options.check_conflicts:
if check_conflicts(easyconfigs, modtool):
print_error("One or more conflicts detected!")
sys.exit(1)
else:
print_msg("\nNo conflicts detected!\n", prefix=False)
# dump source script to set up build environment
elif options.dump_env_script:
dump_env_script(easyconfigs)
elif options.inject_checksums:
inject_checksums(ordered_ecs, options.inject_checksums)
# cleanup and exit after dry run, searching easyconfigs or submitting regression test
stop_options = [
options.check_conflicts, dry_run_mode, options.dump_env_script,
options.inject_checksums
]
if any(no_ec_opts) or any(stop_options):
clean_exit(logfile, eb_tmpdir, testing)
# create dependency graph and exit
if options.dep_graph:
_log.info("Creating dependency graph %s" % options.dep_graph)
dep_graph(options.dep_graph, ordered_ecs)
clean_exit(logfile, eb_tmpdir, testing, silent=True)
# submit build as job(s), clean up and exit
if options.job:
submit_jobs(ordered_ecs, eb_go.generate_cmd_line(), testing=testing)
if not testing:
print_msg("Submitted parallel build jobs, exiting now")
clean_exit(logfile, eb_tmpdir, testing)
# build software, will exit when errors occurs (except when testing)
if not testing or (testing and do_build):
exit_on_failure = not (options.dump_test_report
or options.upload_test_report)
progress_bar = create_progress_bar()
with progress_bar:
ecs_with_res = build_and_install_software(
ordered_ecs,
init_session_state,
exit_on_failure=exit_on_failure,
progress_bar=progress_bar)
else:
ecs_with_res = [(ec, {}) for ec in ordered_ecs]
correct_builds_cnt = len([
ec_res for (_, ec_res) in ecs_with_res if ec_res.get('success', False)
])
overall_success = correct_builds_cnt == len(ordered_ecs)
success_msg = "Build succeeded "
if build_option('ignore_test_failure'):
success_msg += "(with --ignore-test-failure) "
success_msg += "for %s out of %s" % (correct_builds_cnt, len(ordered_ecs))
repo = init_repository(get_repository(), get_repositorypath())
repo.cleanup()
# dump/upload overall test report
test_report_msg = overall_test_report(ecs_with_res, len(paths),
overall_success, success_msg,
init_session_state)
if test_report_msg is not None:
print_msg(test_report_msg)
print_msg(success_msg, log=_log, silent=testing)
# cleanup and spec files
for ec in easyconfigs:
if 'original_spec' in ec and os.path.isfile(ec['spec']):
os.remove(ec['spec'])
run_hook(END, hooks)
# stop logging and cleanup tmp log file, unless one build failed (individual logs are located in eb_tmpdir)
stop_logging(logfile, logtostdout=options.logtostdout)
if overall_success:
cleanup(logfile, eb_tmpdir, testing)