xmipp3-installer 1.0.1__py3-none-any.whl → 2.0.0__py3-none-any.whl

xmipp3_installer/__main__.py

@@ -3,4 +3,4 @@
 from xmipp3_installer.application.cli.cli import main
 
 if __name__ == "__main__":
-    main()
+  main()

xmipp3_installer/api_client/api_client.py

@@ -9,42 +9,43 @@ from xmipp3_installer.installer import urls
 from xmipp3_installer.application.logger.logger import logger
 
 def send_installation_attempt(installation_info: Dict):
-	"""
-	### Sends a POST request to Xmipp's metrics's API.
-	
-	#### Params:
-	- installation_info (dict): Dictionary containing all the installation information.
-	"""
-	if installation_info is None:
-		return
-	params = json.dumps(installation_info)
-	headers = {"Content-type": "application/json"}
-	parsed_url = urlparse(urls.API_URL)
-	conn = None
-	try:
-		conn = __get_https_connection(parsed_url, 2)
-		conn.request("POST", parsed_url.path, body=params, headers=headers)
-		conn.getresponse()
-	except TimeoutError:
-		logger(
-			logger.yellow("There was a timeout while sending installation data."),
-			show_in_terminal=False
-		)
-	finally:
-		if conn is not None:
-			conn.close()
+  """
+  ### Sends a POST request to Xmipp's metrics's API.
+  
+  #### Params:
+  - installation_info (dict): Dictionary containing all the installation information.
+  """
+  if installation_info is None:
+    return
+  params = json.dumps(installation_info)
+  headers = {"Content-type": "application/json"}
+  parsed_url = urlparse(urls.API_URL)
+  conn = None
+  try:
+    conn = __get_https_connection(parsed_url, 6)
+    conn.request("POST", parsed_url.path, body=params, headers=headers)
+    conn.getresponse()
+  except TimeoutError:
+    logger(
+      logger.yellow("There was a timeout while sending installation data."),
+      show_in_terminal=False
+    )
+  finally:
+    if conn is not None:
+      conn.close()
 
 
 def __get_https_connection(parsed_url: ParseResult, timeout_seconds: int) -> http.client.HTTPSConnection:
-	"""
-	### Establishes the connection needed to send the API call.
-	Separated to enable integration & E2E tests.
+  """
+  ### Establishes the connection needed to send the API call.
+  
+  Separated to enable integration & E2E tests.
 
-	#### Params:
-	- parsed_url (ParseResult): Object containing all elements of the url.
-	- timeout_seconds (int): Number of seconds to wait until a timeout.
+  #### Params:
+  - parsed_url (ParseResult): Object containing all elements of the url.
+  - timeout_seconds (int): Number of seconds to wait until a timeout.
 
-	#### Returns:
-	- (HTTPSConnection): Established connection.
-	"""
-	return http.client.HTTPSConnection(parsed_url.hostname, parsed_url.port, timeout=timeout_seconds)
+  #### Returns:
+  - (HTTPSConnection): Established connection.
+  """
+  return http.client.HTTPSConnection(parsed_url.hostname or "localhost", parsed_url.port, timeout=timeout_seconds)

xmipp3_installer/api_client/assembler/installation_info_assembler.py

@@ -14,168 +14,161 @@ from xmipp3_installer.installer.constants import paths
 from xmipp3_installer.installer.handlers import shell_handler, git_handler, versions_manager
 from xmipp3_installer.installer.handlers.cmake import cmake_constants, cmake_handler
 
-def get_installation_info(version_manager: versions_manager.VersionsManager, ret_code: int=0) -> Optional[Dict]:
-	"""
-	### Creates a dictionary with the necessary data for the API POST message.
-	
-	#### Params:
-	- version_manager (VersionsManager): Object containing all the version-related info.
-	- ret_code (int): Optional. Return code for the API request.
-	
-	#### Return:
-	- (dict | None): Dictionary with the required info or None if user id could not be produced.
-	"""
-	library_versions = cmake_handler.get_library_versions_from_cmake_file(
-		paths.LIBRARY_VERSIONS_FILE
-	)
-	environment_info = orquestrator.run_parallel_jobs(
-		[
-			__get_cpu_flags,
-			git_handler.get_current_branch,
-			git_handler.is_branch_up_to_date,
-			__is_installed_by_scipion,
-			__get_log_tail
-		],
-		[(), (), (), (), ()]
-	)
-
-	return {
-		"user": {
-			"userId": __get_user_id()
-		},
-		"version": {
-			"os": get_os_release_name(),
-			"cpuFlags": environment_info[0],
-			"cuda": library_versions.get(cmake_constants.CMAKE_CUDA),
-			"cmake": library_versions.get(cmake_constants.CMAKE_CMAKE),
-			"gcc": library_versions.get(cmake_constants.CMAKE_GCC),
-			"gpp": library_versions.get(cmake_constants.CMAKE_GPP),
-			"mpi": library_versions.get(cmake_constants.CMAKE_MPI),
-			"python": library_versions.get(cmake_constants.CMAKE_PYTHON),
-			"sqlite": library_versions.get(cmake_constants.CMAKE_SQLITE),
-			"java": library_versions.get(cmake_constants.CMAKE_JAVA),
-			"hdf5": library_versions.get(cmake_constants.CMAKE_HDF5),
-			"jpeg": library_versions.get(cmake_constants.CMAKE_JPEG)
-		},
-		"xmipp": {
-			"branch": __get_installation_branch_name(
-				environment_info[1], version_manager
-			),
-			"updated": environment_info[2],
-			"installedByScipion": environment_info[3]
-		},
-		"returnCode": ret_code,
-		"logTail": environment_info[4] if ret_code else None # Only needed if something went wrong
-	}
+def get_installation_info(version_manager: versions_manager.VersionsManager, ret_code: int=0) -> Dict:
+  """
+  ### Creates a dictionary with the necessary data for the API POST message.
+  
+  #### Params:
+  - version_manager (VersionsManager): Object containing all the version-related info.
+  - ret_code (int): Optional. Return code for the API request.
+  
+  #### Return:
+  - (dict): Dictionary with the required info.
+  """
+  library_versions = cmake_handler.get_library_versions_from_cmake_file(
+    paths.LIBRARY_VERSIONS_FILE
+  )
+  environment_info = orquestrator.run_parallel_jobs(
+    [
+      __get_cpu_flags,
+      git_handler.get_current_branch,
+      git_handler.is_branch_up_to_date,
+      __is_installed_by_scipion,
+      __get_log_tail
+    ],
+    [(), (), (), (), ()]
+  )
+
+  return {
+    "user": {
+      "userId": __get_user_id()
+    },
+    "version": {
+      "os": get_os_release_name(),
+      "cpuFlags": environment_info[0],
+      "cuda": library_versions.get(cmake_constants.CMAKE_CUDA),
+      "cmake": library_versions.get(cmake_constants.CMAKE_CMAKE),
+      "gcc": library_versions.get(cmake_constants.CMAKE_GCC),
+      "gpp": library_versions.get(cmake_constants.CMAKE_GPP),
+      "mpi": library_versions.get(cmake_constants.CMAKE_MPI),
+      "python": library_versions.get(cmake_constants.CMAKE_PYTHON),
+      "sqlite": library_versions.get(cmake_constants.CMAKE_SQLITE),
+      "java": library_versions.get(cmake_constants.CMAKE_JAVA),
+      "hdf5": library_versions.get(cmake_constants.CMAKE_HDF5),
+      "jpeg": library_versions.get(cmake_constants.CMAKE_JPEG)
+    },
+    "xmipp": {
+      "branch": __get_installation_branch_name(
+        environment_info[1], version_manager
+      ),
+      "updated": environment_info[2],
+      "installedByScipion": environment_info[3]
+    },
+    "returnCode": ret_code,
+    "logTail": environment_info[4] if ret_code else None # Only needed if something went wrong
+  }
 
 def get_os_release_name() -> str:
-	"""
-	### Returns the name of the current system OS release.
+  """
+  ### Returns the name of the current system OS release.
 
-	#### Returns:
-	- (str): OS release name.
-	"""
-	platform_system = platform.system()
-	if platform_system == "Linux":
-		return f"{distro.name()} {distro.version()}"
-	return f"{platform_system} {platform.release()}"
+  #### Returns:
+  - (str): OS release name.
+  """
+  platform_system = platform.system()
+  if platform_system == "Linux":
+    return f"{distro.name()} {distro.version()}"
+  return f"{platform_system} {platform.release()}"
 
 def __get_installation_branch_name(branch_name: str, version_manager: versions_manager.VersionsManager) -> str:
-	"""
-	### Returns the branch or release name of Xmipp.
+  """
+  ### Returns the branch or release name of Xmipp.
 
-	#### Params:
-	- branch_name (str): Retrieved branch name.
-	- version_manager (VersionsManager): Object containing all the version-related info.
+  #### Params:
+  - branch_name (str): Retrieved branch name.
+  - version_manager (VersionsManager): Object containing all the version-related info.
 
-	#### Return:
-	- (str): Release name if Xmipp is in a release branch, or the branch name otherwise.
-	"""
-	if not branch_name or branch_name == constants.MASTER_BRANCHNAME:
-		return version_manager.xmipp_version_number
-	return branch_name
+  #### Return:
+  - (str): Release name if Xmipp is in a release branch, or the branch name otherwise.
+  """
+  return branch_name or version_manager.xmipp_version_number
 
 def __get_user_id() -> str:
-	"""
-	### Returns the unique user id for this machine.
-	
-	#### Returns:
-	- (str): User id, or 'Anoymous' if there were any errors.
-	"""
-	identifier = __get_mac_address()
-	if not identifier:
-		identifier = getpass.getuser()
-		if not identifier:
-			return "Anonymous"
-	
-	sha256 = hashlib.sha256()
-	sha256.update(identifier.encode())
-	return sha256.hexdigest()
+  """
+  ### Returns the unique user id for this machine.
+  
+  #### Returns:
+  - (str): User id, or 'Anoymous' if there were any errors.
+  """
+  identifier = __get_mac_address()
+  if not identifier:
+    identifier = getpass.getuser()
+    if not identifier:
+      return "Anonymous"
+  
+  sha256 = hashlib.sha256()
+  sha256.update(identifier.encode())
+  return sha256.hexdigest()
 
 def __get_cpu_flags() -> List[str]:
-	"""
-	### This function obtains the list of compilation flags supported by the CPU.
-
-	#### Returns:
-	- (list(str)): List of flags supported by the CPU.  
-	"""
-	flags_header = "Flags:"
-	ret_code, flags_line = shell_handler.run_shell_command(f'lscpu | grep \"{flags_header}\"')
-	if ret_code:
-		return []
-	flags_line = flags_line.replace(flags_header, "").strip()
-	return [flag for flag in flags_line.split(" ") if flag]
+  """
+  ### This function obtains the list of compilation flags supported by the CPU.
+
+  #### Returns:
+  - (list(str)): List of flags supported by the CPU.  
+  """
+  flags_header = "Flags:"
+  ret_code, flags_line = shell_handler.run_shell_command(f'lscpu | grep \"{flags_header}\"')
+  if ret_code:
+    return []
+  flags_line = flags_line.replace(flags_header, "").strip()
+  return [flag for flag in flags_line.split(" ") if flag]
 
 def __get_log_tail() -> Optional[str]:
-	"""
-	### Returns the last lines of the installation log.
-	
-	#### Returns:
-	- (str | None): Installation log's last lines, or None if there were any errors.
-	"""
-	ret_code, output = shell_handler.run_shell_command(
-		f"tail -n {constants.TAIL_LOG_NCHARS} {paths.LOG_FILE}"
-	)
-	return output if ret_code == 0 else None
+  """
+  ### Returns the last lines of the installation log.
+  
+  #### Returns:
+  - (str | None): Installation log's last lines, or None if there were any errors.
+  """
+  ret_code, output = shell_handler.run_shell_command(
+    f"tail -n {constants.TAIL_LOG_NCHARS} {paths.LOG_FILE}"
+  )
+  return output if ret_code == 0 else None
 
 def __get_mac_address() -> Optional[str]:
-	"""
-	### Returns a physical MAC address for this machine. It prioritizes ethernet over wireless.
-	
-	#### Returns:
-	- (str | None): MAC address, or None if there were any errors.
-	"""
-	ret_code, output = shell_handler.run_shell_command("ip addr")
-	return __find_mac_address_in_lines(output.split('\n')) if ret_code == 0 else None
+  """
+  ### Returns a physical MAC address for this machine. It prioritizes ethernet over wireless.
+  
+  #### Returns:
+  - (str | None): MAC address, or None if there were any errors.
+  """
+  ret_code, output = shell_handler.run_shell_command("ip addr")
+  return __find_mac_address_in_lines(output.split('\n')) if ret_code == 0 else None
 
 def __find_mac_address_in_lines(lines: List[str]) -> Optional[str]:
-	"""
-	### Returns a physical MAC address within the text lines provided.
-
-	#### Params:
-	- lines (list(str)): Lines of text where MAC address should be looked for.
-	
-	#### Returns:
-	- (str | None): MAC address if found, None otherwise.
-	"""
-	for line_index in range(len(lines) - 1):
-		line = lines[line_index]
-		match = re.match(r"^\d+: (enp|wlp|eth|ens|eno)\w+", line)
-		if not match:
-			continue
-		interface_name = match.group(1)
-		if interface_name.startswith(('enp', 'wlp', 'eth', 'ens', 'eno')):
-			return re.search(
-				r"link/ether ([0-9a-f:]{17})",
-				lines[line_index + 1]
-			).group(1)
-	return None
+  """
+  ### Returns a physical MAC address within the text lines provided.
+
+  #### Params:
+  - lines (list(str)): Lines of text where MAC address should be looked for.
+  
+  #### Returns:
+  - (str | None): MAC address if found, None otherwise.
+  """
+  for line_index in range(len(lines) - 1):
+    match = re.match(r"^\d+: (enp|wlp|eth|ens|eno)\w+", lines[line_index])
+    if not match:
+      continue
+    mac_match = re.search(r"link/ether ([0-9a-f:]{17})", lines[line_index + 1])
+    if mac_match:
+      return mac_match.group(1)
 
 def __is_installed_by_scipion() -> bool:
-	"""
-	### Checks if the current xmipp installation is being carried out from Scipion.
+  """
+  ### Checks if the current xmipp installation is being carried out from Scipion.
 
-	#### Returns:
-	- (bool): True if the installation is executed by Scipion, False otherwise.
-	"""
-	return bool(os.getenv("SCIPION_SOFTWARE"))
+  #### Returns:
+  - (bool): True if the installation is executed by Scipion, False otherwise.
+  """
+  return bool(os.getenv("SCIPION_SOFTWARE"))

xmipp3_installer/application/cli/arguments/__init__.py

@@ -1,8 +1,9 @@
 """### Containis all common constants needed for the argument parsing part of Xmipp's installation."""
 
+from xmipp3_installer.installer.constants import paths
+
 XMIPP_PROGRAM_NAME = "xmipp"
 
 # Other variables
 COMMON_USAGE_HELP_MESSAGE = 'Run \"./xmipp -h\" for usage help.'
-DEFAULT_BUILD_DIR = 'build'
-DEFAULT_MODELS_DIR = DEFAULT_BUILD_DIR
+DEFAULT_MODELS_DIR = paths.INSTALL_PATH

xmipp3_installer/application/cli/arguments/modes.py

@@ -4,8 +4,10 @@ from xmipp3_installer.application.cli import arguments
 from xmipp3_installer.application.cli.arguments.params import (
   PARAM_SHORT, PARAM_JOBS, PARAM_BRANCH, PARAM_KEEP_OUTPUT, PARAM_OVERWRITE,
   PARAM_MODELS_DIRECTORY, PARAM_TEST_NAMES, PARAM_SHOW_TESTS, PARAM_GIT_COMMAND,
-  PARAM_LOGIN, PARAM_MODEL_PATH, PARAM_UPDATE, PARAMS, SHORT_VERSION, LONG_VERSION
+  PARAM_LOGIN, PARAM_MODEL_PATH, PARAM_UPDATE, PARAMS, PARAM_ALL_FUNCTIONS,
+  PARAM_ALL_PROGRAMS, SHORT_VERSION, LONG_VERSION
 )
+from xmipp3_installer.installer import urls, constants
 
 MODE = "mode"
 
@@ -25,106 +27,121 @@ MODE_VERSION = 'version'
 
 # Modes with help message
 MODES = {
-	'General': {
-		MODE_VERSION: ['Returns the version information. Add \'--short\' to print only the version number.'],
-		MODE_COMPILE_AND_INSTALL: ['Compiles and installs Xmipp based on already obtained sources.'],
-		MODE_ALL: [f'Default param. Runs {MODE_CONFIG}, {MODE_CONFIG_BUILD}, and {MODE_COMPILE_AND_INSTALL}.'],
-		MODE_CONFIG_BUILD: ['Configures the project with CMake.']
-	},
-	'Config': {
-		MODE_CONFIG: ['Generates a config file template with default values.'],
-	},
-	'Downloads': {
-		MODE_GET_MODELS: [f'Download the DeepLearning Models at dir/models ({arguments.DEFAULT_MODELS_DIR} by default).'],
-		MODE_GET_SOURCES: ['Clone all Xmipp\'s sources.']
-	},
-	'Clean': {
-		MODE_CLEAN_BIN: ['Removes all compiled binaries.'],
-		MODE_CLEAN_ALL: ['Removes all compiled binaries and sources, leaves the repository as if freshly cloned (without pulling).']
-	},
-	'Test': {
-		MODE_TEST: ['Runs a given test.']
-	},
-	'Developers': {
-		MODE_GIT: ['Runs the given git action for all source repositories.'],
-		MODE_ADD_MODEL: [
-			"Takes a DeepLearning model from the modelPath, makes a tgz of it and uploads the .tgz according to the <login>.",
-			"This mode is used to upload a model folder to the Scipion/Xmipp server.",
-			"Usually the model folder contains big files used to fed deep learning procedures"
-			"with pretrained data. All the models stored in the server will be downloads"
-			"using the 'get_models' mode or during the compilation/installation time"
-			"or with scipion3 installb deepLearningToolkit modelsPath must be the absolute path.",
-			"",
-			"Usage: -> ./xmipp addModel <usr@server> <modelsPath> [--update]",
-			"Steps:	0. modelName = basename(modelsPath) <- Please, check the folders name!",
-			"        1. Packing in 'xmipp_model_modelName.tgz'",
-			"        2. Check if that model already exists (use --update to override an existing model)",
-			"        3. Upload the model to the server.",
-			"        4. Update the MANIFEST file.",
-			"",
-			"The model name will be the folder name in <modelsPath>",
-			"Must have write permisions to such machine."
-		]
-	}
+  'General': {
+    MODE_VERSION: ['Returns the version information. Add \'--short\' to print only the version number.'],
+    MODE_COMPILE_AND_INSTALL: ['Compiles and installs Xmipp based on already obtained sources.'],
+    MODE_ALL: [f'Default param. Runs {MODE_CONFIG}, {MODE_CONFIG_BUILD}, and {MODE_COMPILE_AND_INSTALL}.'],
+    MODE_CONFIG_BUILD: ['Configures the project with CMake.']
+  },
+  'Config': {
+    MODE_CONFIG: ['Generates a config file template with default values.'],
+  },
+  'Downloads': {
+    MODE_GET_MODELS: [
+      f'Downloads the Deep Learning Models required by the DLTK tools at dir/models ({arguments.DEFAULT_MODELS_DIR} by default).',
+      f'Visit {urls.DLTK_DOCS_URL} for more details.'
+    ],
+    MODE_GET_SOURCES: [f'Clones Xmipp\'s source repositories {constants.XMIPP_CORE} & {constants.XMIPP_VIZ}.']
+  },
+  'Clean': {
+    MODE_CLEAN_BIN: ['Removes all compiled binaries.'],
+    MODE_CLEAN_ALL: ['Removes all compiled binaries and sources, leaves the repository as if freshly cloned (without pulling).']
+  },
+  'Test': {
+    MODE_TEST: [
+      'Runs Xmipp\'s tests.',
+      f'If used with \'{PARAMS[PARAM_TEST_NAMES][SHORT_VERSION]}\', only the tests provided will run.',
+      f'If used with \'{PARAMS[PARAM_SHOW_TESTS][LONG_VERSION]}\', a list the tests available and how to invoke them will be shown.',
+      f'If used with \'{PARAMS[PARAM_ALL_FUNCTIONS][LONG_VERSION]}\', all function tests will run.',
+      f'If used with \'{PARAMS[PARAM_ALL_PROGRAMS][LONG_VERSION]}\', all program tests will run.'
+    ]
+  },
+  'Developers': {
+    MODE_GIT: ['Runs the given git action for all source repositories.'],
+    MODE_ADD_MODEL: [
+      "Takes a DeepLearning model from the modelPath, makes a tgz of it and uploads the .tgz according to the <login>.",
+      "This mode is used to upload a model folder to the Scipion/Xmipp server.",
+      "Usually the model folder contains big files used to feed deep learning procedures "
+      "with pretrained data. All the models stored in the server will be downloaded "
+      "using the 'get_models' mode, during the compilation/installation time, "
+      "or with scipion3 installb deepLearningToolkit.",
+      "Param <modelsPath> must be an absolute path.",
+      "",
+      "Usage: -> ./xmipp addModel <usr@server> <modelsPath> [--update]",
+      "Steps:	0. modelName = basename(modelsPath) <- Please, check the folders name!",
+      "        1. Packing in 'xmipp_model_modelName.tgz'",
+      "        2. Check if that model already exists (use --update to override an existing model)",
+      "        3. Upload the model to the server.",
+      "        4. Update the MANIFEST file.",
+      "",
+      "The model name will be the folder name in <modelsPath>",
+      "Must have write permissions to such machine."
+    ]
+  }
 }
 
 # Arguments of each mode, sorted by group
+# Inside each mode, params are grouped by mutually exclusive groups
+# For example: MYMODE: [[PARAM1, PARAM2], [PARAM3, PARAM4]] would translate to
+# "mymode ([param1] [param2] | [param3] [param4])" in the general help message
 MODE_ARGS = {
-	MODE_VERSION: [PARAM_SHORT],
-	MODE_COMPILE_AND_INSTALL: [PARAM_JOBS, PARAM_KEEP_OUTPUT],
-	MODE_ALL: [PARAM_JOBS, PARAM_BRANCH, PARAM_KEEP_OUTPUT],
-	MODE_CONFIG_BUILD: [PARAM_KEEP_OUTPUT],
-	MODE_CONFIG: [PARAM_OVERWRITE],
-	MODE_GET_MODELS: [PARAM_MODELS_DIRECTORY],
-	MODE_GET_SOURCES: [PARAM_BRANCH, PARAM_KEEP_OUTPUT],
-	MODE_CLEAN_BIN: [],
-	MODE_CLEAN_ALL: [],
-	MODE_TEST: [PARAM_TEST_NAMES, PARAM_SHOW_TESTS],
-	MODE_GIT: [PARAM_GIT_COMMAND],
-	MODE_ADD_MODEL: [PARAM_LOGIN, PARAM_MODEL_PATH, PARAM_UPDATE]
+  MODE_VERSION: [PARAM_SHORT],
+  MODE_COMPILE_AND_INSTALL: [PARAM_JOBS, PARAM_KEEP_OUTPUT],
+  MODE_ALL: [PARAM_JOBS, PARAM_BRANCH, PARAM_KEEP_OUTPUT],
+  MODE_CONFIG_BUILD: [PARAM_KEEP_OUTPUT],
+  MODE_CONFIG: [PARAM_OVERWRITE],
+  MODE_GET_MODELS: [PARAM_MODELS_DIRECTORY],
+  MODE_GET_SOURCES: [PARAM_BRANCH, PARAM_KEEP_OUTPUT],
+  MODE_CLEAN_BIN: [],
+  MODE_CLEAN_ALL: [],
+  MODE_TEST: [[PARAM_TEST_NAMES], [PARAM_SHOW_TESTS], [PARAM_ALL_FUNCTIONS], [PARAM_ALL_PROGRAMS]],
+  MODE_GIT: [PARAM_GIT_COMMAND],
+  MODE_ADD_MODEL: [PARAM_LOGIN, PARAM_MODEL_PATH, PARAM_UPDATE]
 }
 
 # Examples for the help message of each mode
 MODE_EXAMPLES = {
-	MODE_VERSION: [
-		f'./xmipp {MODE_VERSION}',
-		f'./xmipp {MODE_VERSION} {PARAMS[PARAM_SHORT][LONG_VERSION]}',
-	],
-	MODE_COMPILE_AND_INSTALL: [
-		f'./xmipp {MODE_COMPILE_AND_INSTALL}',
-		f'./xmipp {MODE_COMPILE_AND_INSTALL} {PARAMS[PARAM_JOBS][SHORT_VERSION]} 20',
-	],
-	MODE_ALL: [
-		'./xmipp',
-		f'./xmipp {MODE_ALL}',
-		f'./xmipp {PARAMS[PARAM_JOBS][SHORT_VERSION]} 20',
-		f'./xmipp {PARAMS[PARAM_BRANCH][SHORT_VERSION]} devel',
-		f'./xmipp {MODE_ALL} {PARAMS[PARAM_JOBS][SHORT_VERSION]} 20 '
-		f'{PARAMS[PARAM_BRANCH][SHORT_VERSION]} devel'
-	],
-	MODE_CONFIG_BUILD: [],
-	MODE_CONFIG: [
-		f'./xmipp {MODE_CONFIG} {PARAMS[PARAM_OVERWRITE][LONG_VERSION]}'
-	],
-	MODE_GET_MODELS: [
-		f'./xmipp {MODE_GET_MODELS}',
-		f'./xmipp {MODE_GET_MODELS} {PARAMS[PARAM_MODELS_DIRECTORY][SHORT_VERSION]} /path/to/my/model/directory'
-	],
-	MODE_GET_SOURCES: [
-		f'./xmipp {MODE_GET_SOURCES}'
-		f'./xmipp {MODE_GET_SOURCES} {PARAMS[PARAM_BRANCH][SHORT_VERSION]} devel'
-	],
-	MODE_CLEAN_BIN: [],
-	MODE_CLEAN_ALL: [],
-	MODE_TEST: [
-		f'./xmipp {MODE_TEST} xmipp_sample_test',
-		f'./xmipp {MODE_TEST} {PARAMS[PARAM_SHORT][LONG_VERSION]}',
-	],
-	MODE_GIT: [
-		f'./xmipp {MODE_GIT} pull',
-		f'./xmipp {MODE_GIT} checkout devel'
-	],
-	MODE_ADD_MODEL: [
-		f'./xmipp {MODE_ADD_MODEL} myuser@127.0.0.1 /home/myuser/mymodel'
-	]
+  MODE_VERSION: [
+    f'./xmipp {MODE_VERSION}',
+    f'./xmipp {MODE_VERSION} {PARAMS[PARAM_SHORT][LONG_VERSION]}',
+  ],
+  MODE_COMPILE_AND_INSTALL: [
+    f'./xmipp {MODE_COMPILE_AND_INSTALL}',
+    f'./xmipp {MODE_COMPILE_AND_INSTALL} {PARAMS[PARAM_JOBS][SHORT_VERSION]} 20',
+  ],
+  MODE_ALL: [
+    './xmipp',
+    f'./xmipp {MODE_ALL}',
+    f'./xmipp {PARAMS[PARAM_JOBS][SHORT_VERSION]} 20',
+    f'./xmipp {PARAMS[PARAM_BRANCH][SHORT_VERSION]} devel',
+    f'./xmipp {MODE_ALL} {PARAMS[PARAM_JOBS][SHORT_VERSION]} 20 '
+    f'{PARAMS[PARAM_BRANCH][SHORT_VERSION]} devel'
+  ],
+  MODE_CONFIG_BUILD: [],
+  MODE_CONFIG: [
+    f'./xmipp {MODE_CONFIG} {PARAMS[PARAM_OVERWRITE][LONG_VERSION]}'
+  ],
+  MODE_GET_MODELS: [
+    f'./xmipp {MODE_GET_MODELS}',
+    f'./xmipp {MODE_GET_MODELS} {PARAMS[PARAM_MODELS_DIRECTORY][SHORT_VERSION]} /path/to/my/model/directory'
+  ],
+  MODE_GET_SOURCES: [
+    f'./xmipp {MODE_GET_SOURCES}'
+    f'./xmipp {MODE_GET_SOURCES} {PARAMS[PARAM_BRANCH][SHORT_VERSION]} devel'
+  ],
+  MODE_CLEAN_BIN: [],
+  MODE_CLEAN_ALL: [],
+  MODE_TEST: [
+    f'./xmipp {MODE_TEST} xmipp_sample_test',
+    f'./xmipp {MODE_TEST} {PARAMS[PARAM_SHOW_TESTS][LONG_VERSION]}',
+    f'./xmipp {MODE_TEST} {PARAMS[PARAM_ALL_FUNCTIONS][LONG_VERSION]}',
+    f'./xmipp {MODE_TEST} {PARAMS[PARAM_ALL_PROGRAMS][LONG_VERSION]}'
+  ],
+  MODE_GIT: [
+    f'./xmipp {MODE_GIT} pull',
+    f'./xmipp {MODE_GIT} checkout devel'
+  ],
+  MODE_ADD_MODEL: [
+    f'./xmipp {MODE_ADD_MODEL} myuser@127.0.0.1 /home/myuser/mymodel'
+  ]
 }