Merge pull request #426 from sartography/feature/performance_improvement
Performance upgrades - study dashboard in less than 2 seconds now
This commit is contained in:
Mike Cullerton
GitHub
commit
8cc581611e
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@ -198,11 +198,11 @@
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},
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@ -247,56 +247,56 @@
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"version": "==6.2"
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@ -1086,23 +1086,38 @@
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@ -1112,24 +1127,34 @@
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|
||||
"sha256:ca5f18a75e1256ce07494e245cdb146f5a9267d3c702ebf9b65c7f8bd843431e",
|
||||
"sha256:cd410a1cbb2d297c67d8521759ab2ee3f1d66206d2e4328502a487589a2cb21b",
|
||||
"sha256:ce298e3d0c65bd03fa65ffcc6db0e2b578e8f626d468db64fdf8457731052942",
|
||||
"sha256:d5ca078bb666c4a9d1287a379fe617a6dccd18c3e8a7e6c7e1eb8974330c626a",
|
||||
"sha256:d5fd67df77bab0d3f4ea1d7afca9ef15c2ee35dfb348c7b57ffb9782a6e4db6e",
|
||||
"sha256:da1a90c1ddb7531b1d5ff1e171b4ee61f6345119be7351104b67ff413843fe94",
|
||||
"sha256:dba70f30fd81f8ce6d32ddeef37d91c8948e5d5a4c63242d16a2b2df8143aafc",
|
||||
"sha256:dc07f021ee80510f3cd3af2cad5b6a3b3a10b057521d9e6aaeb621730d320c5a",
|
||||
"sha256:dd33eb9bdcfbabab3459c9ee651d94c842bc8a05fabc95edf4ee0c15a072495e",
|
||||
"sha256:e0538c43565ee6e703d3a7c3bdfe4037a5209250e8502c98f20fea6f5fdf2965",
|
||||
"sha256:e1f54b9b4b6c53369f40028d2dd07a8c374583417ee6ec0ea304e710a20f80a0",
|
||||
"sha256:e32d2a2b02ccbef10145df9135751abea1f9f076e67a4e261b05f24b94219e36",
|
||||
"sha256:e6096b0688e6e14af6a1b10eaad86b4ff17935c49aa774eac7c95a57a4e8c296",
|
||||
"sha256:e71255ba42567d34a13c03968736c5d39bb4a97ce98188fafb27ce981115beec",
|
||||
"sha256:ed2e07c6a26ed4bea91b897ee2b0835c21716d9a469a96c3e878dc5f8c55bb23",
|
||||
"sha256:eef2afb0fd1747f33f1ee3e209bce1ed582d1896b240ccc5e2697e3275f037c7",
|
||||
"sha256:f23222527b307970e383433daec128d769ff778d9b29343fb3496472dc20dabe",
|
||||
"sha256:f341ee2df0999bfdf7a95e448075effe0db212a59387de1a70690e4acb03d4c6",
|
||||
"sha256:f5be7805e53dafe94d295399cfbe5227f39995a997f4fd8539bf3cbdc8f47ca8",
|
||||
"sha256:f7f325be2804246a75a4f45c72d4ce80d2443ab815063cdf70ee8fb2ca59ee1b",
|
||||
"sha256:f8af619e3be812a2059b212064ea7a640aff0568d972cd1b9e920837469eb3cb",
|
||||
"sha256:fa8c626d6441e2d04b6ee703ef2d1e17608ad44c7cb75258c09dd42bacdfc64b",
|
||||
|
|
@ -1182,11 +1207,11 @@
|
|||
},
|
||||
"sphinx": {
|
||||
"hashes": [
|
||||
"sha256:6d051ab6e0d06cba786c4656b0fe67ba259fe058410f49e95bee6e49c4052cbf",
|
||||
"sha256:7e2b30da5f39170efcd95c6270f07669d623c276521fee27ad6c380f49d2bf5b"
|
||||
"sha256:048dac56039a5713f47a554589dc98a442b39226a2b9ed7f82797fcb2fe9253f",
|
||||
"sha256:32a5b3e9a1b176cc25ed048557d4d3d01af635e6b76c5bc7a43b0a34447fbd45"
|
||||
],
|
||||
"index": "pypi",
|
||||
"version": "==4.3.0"
|
||||
"version": "==4.3.1"
|
||||
},
|
||||
"sphinxcontrib-applehelp": {
|
||||
"hashes": [
|
||||
|
|
@ -1238,7 +1263,7 @@
|
|||
},
|
||||
"spiffworkflow": {
|
||||
"git": "https://github.com/sartography/SpiffWorkflow",
|
||||
"ref": "9b5b99fd7b1dac19586fe78026d1604f9f8a7e26"
|
||||
"ref": "1fa88aa73fbc087bef63f34b080ce42495296343"
|
||||
},
|
||||
"sqlalchemy": {
|
||||
"hashes": [
|
||||
|
|
@ -1455,56 +1480,56 @@
|
|||
},
|
||||
"coverage": {
|
||||
"hashes": [
|
||||
"sha256:046647b96969fda1ae0605f61288635209dd69dcd27ba3ec0bf5148bc157f954",
|
||||
"sha256:06d009e8a29483cbc0520665bc46035ffe9ae0e7484a49f9782c2a716e37d0a0",
|
||||
"sha256:0cde7d9fe2fb55ff68ebe7fb319ef188e9b88e0a3d1c9c5db7dd829cd93d2193",
|
||||
"sha256:1de9c6f5039ee2b1860b7bad2c7bc3651fbeb9368e4c4d93e98a76358cdcb052",
|
||||
"sha256:24ed38ec86754c4d5a706fbd5b52b057c3df87901a8610d7e5642a08ec07087e",
|
||||
"sha256:27a3df08a855522dfef8b8635f58bab81341b2fb5f447819bc252da3aa4cf44c",
|
||||
"sha256:310c40bed6b626fd1f463e5a83dba19a61c4eb74e1ac0d07d454ebbdf9047e9d",
|
||||
"sha256:3348865798c077c695cae00da0924136bb5cc501f236cfd6b6d9f7a3c94e0ec4",
|
||||
"sha256:35b246ae3a2c042dc8f410c94bcb9754b18179cdb81ff9477a9089dbc9ecc186",
|
||||
"sha256:3f546f48d5d80a90a266769aa613bc0719cb3e9c2ef3529d53f463996dd15a9d",
|
||||
"sha256:586d38dfc7da4a87f5816b203ff06dd7c1bb5b16211ccaa0e9788a8da2b93696",
|
||||
"sha256:5d3855d5d26292539861f5ced2ed042fc2aa33a12f80e487053aed3bcb6ced13",
|
||||
"sha256:610c0ba11da8de3a753dc4b1f71894f9f9debfdde6559599f303286e70aeb0c2",
|
||||
"sha256:62646d98cf0381ffda301a816d6ac6c35fc97aa81b09c4c52d66a15c4bef9d7c",
|
||||
"sha256:66af99c7f7b64d050d37e795baadf515b4561124f25aae6e1baa482438ecc388",
|
||||
"sha256:675adb3b3380967806b3cbb9c5b00ceb29b1c472692100a338730c1d3e59c8b9",
|
||||
"sha256:6e5a8c947a2a89c56655ecbb789458a3a8e3b0cbf4c04250331df8f647b3de59",
|
||||
"sha256:7a39590d1e6acf6a3c435c5d233f72f5d43b585f5be834cff1f21fec4afda225",
|
||||
"sha256:80cb70264e9a1d04b519cdba3cd0dc42847bf8e982a4d55c769b9b0ee7cdce1e",
|
||||
"sha256:82fdcb64bf08aa5db881db061d96db102c77397a570fbc112e21c48a4d9cb31b",
|
||||
"sha256:8492d37acdc07a6eac6489f6c1954026f2260a85a4c2bb1e343fe3d35f5ee21a",
|
||||
"sha256:94f558f8555e79c48c422045f252ef41eb43becdd945e9c775b45ebfc0cbd78f",
|
||||
"sha256:958ac66272ff20e63d818627216e3d7412fdf68a2d25787b89a5c6f1eb7fdd93",
|
||||
"sha256:95a58336aa111af54baa451c33266a8774780242cab3704b7698d5e514840758",
|
||||
"sha256:96129e41405887a53a9cc564f960d7f853cc63d178f3a182fdd302e4cab2745b",
|
||||
"sha256:97ef6e9119bd39d60ef7b9cd5deea2b34869c9f0b9777450a7e3759c1ab09b9b",
|
||||
"sha256:98d44a8136eebbf544ad91fef5bd2b20ef0c9b459c65a833c923d9aa4546b204",
|
||||
"sha256:9d2c2e3ce7b8cc932a2f918186964bd44de8c84e2f9ef72dc616f5bb8be22e71",
|
||||
"sha256:a300b39c3d5905686c75a369d2a66e68fd01472ea42e16b38c948bd02b29e5bd",
|
||||
"sha256:a34fccb45f7b2d890183a263578d60a392a1a218fdc12f5bce1477a6a68d4373",
|
||||
"sha256:a4d48e42e17d3de212f9af44f81ab73b9378a4b2b8413fd708d0d9023f2bbde4",
|
||||
"sha256:af45eea024c0e3a25462fade161afab4f0d9d9e0d5a5d53e86149f74f0a35ecc",
|
||||
"sha256:ba6125d4e55c0b8e913dad27b22722eac7abdcb1f3eab1bd090eee9105660266",
|
||||
"sha256:bc1ee1318f703bc6c971da700d74466e9b86e0c443eb85983fb2a1bd20447263",
|
||||
"sha256:c18725f3cffe96732ef96f3de1939d81215fd6d7d64900dcc4acfe514ea4fcbf",
|
||||
"sha256:c8e9c4bcaaaa932be581b3d8b88b677489975f845f7714efc8cce77568b6711c",
|
||||
"sha256:cc799916b618ec9fd00135e576424165691fec4f70d7dc12cfaef09268a2478c",
|
||||
"sha256:cd2d11a59afa5001ff28073ceca24ae4c506da4355aba30d1e7dd2bd0d2206dc",
|
||||
"sha256:d0a595a781f8e186580ff8e3352dd4953b1944289bec7705377c80c7e36c4d6c",
|
||||
"sha256:d3c5f49ce6af61154060640ad3b3281dbc46e2e0ef2fe78414d7f8a324f0b649",
|
||||
"sha256:d9a635114b88c0ab462e0355472d00a180a5fbfd8511e7f18e4ac32652e7d972",
|
||||
"sha256:e5432d9c329b11c27be45ee5f62cf20a33065d482c8dec1941d6670622a6fb8f",
|
||||
"sha256:eab14fdd410500dae50fd14ccc332e65543e7b39f6fc076fe90603a0e5d2f929",
|
||||
"sha256:ebcc03e1acef4ff44f37f3c61df478d6e469a573aa688e5a162f85d7e4c3860d",
|
||||
"sha256:fae3fe111670e51f1ebbc475823899524e3459ea2db2cb88279bbfb2a0b8a3de",
|
||||
"sha256:fd92ece726055e80d4e3f01fff3b91f54b18c9c357c48fcf6119e87e2461a091",
|
||||
"sha256:ffa545230ca2ad921ad066bf8fd627e7be43716b6e0fcf8e32af1b8188ccb0ab"
|
||||
"sha256:01774a2c2c729619760320270e42cd9e797427ecfddd32c2a7b639cdc481f3c0",
|
||||
"sha256:03b20e52b7d31be571c9c06b74746746d4eb82fc260e594dc662ed48145e9efd",
|
||||
"sha256:0a7726f74ff63f41e95ed3a89fef002916c828bb5fcae83b505b49d81a066884",
|
||||
"sha256:1219d760ccfafc03c0822ae2e06e3b1248a8e6d1a70928966bafc6838d3c9e48",
|
||||
"sha256:13362889b2d46e8d9f97c421539c97c963e34031ab0cb89e8ca83a10cc71ac76",
|
||||
"sha256:174cf9b4bef0db2e8244f82059a5a72bd47e1d40e71c68ab055425172b16b7d0",
|
||||
"sha256:17e6c11038d4ed6e8af1407d9e89a2904d573be29d51515f14262d7f10ef0a64",
|
||||
"sha256:215f8afcc02a24c2d9a10d3790b21054b58d71f4b3c6f055d4bb1b15cecce685",
|
||||
"sha256:22e60a3ca5acba37d1d4a2ee66e051f5b0e1b9ac950b5b0cf4aa5366eda41d47",
|
||||
"sha256:2641f803ee9f95b1f387f3e8f3bf28d83d9b69a39e9911e5bfee832bea75240d",
|
||||
"sha256:276651978c94a8c5672ea60a2656e95a3cce2a3f31e9fb2d5ebd4c215d095840",
|
||||
"sha256:3f7c17209eef285c86f819ff04a6d4cbee9b33ef05cbcaae4c0b4e8e06b3ec8f",
|
||||
"sha256:3feac4084291642165c3a0d9eaebedf19ffa505016c4d3db15bfe235718d4971",
|
||||
"sha256:49dbff64961bc9bdd2289a2bda6a3a5a331964ba5497f694e2cbd540d656dc1c",
|
||||
"sha256:4e547122ca2d244f7c090fe3f4b5a5861255ff66b7ab6d98f44a0222aaf8671a",
|
||||
"sha256:5829192582c0ec8ca4a2532407bc14c2f338d9878a10442f5d03804a95fac9de",
|
||||
"sha256:5d6b09c972ce9200264c35a1d53d43ca55ef61836d9ec60f0d44273a31aa9f17",
|
||||
"sha256:600617008aa82032ddeace2535626d1bc212dfff32b43989539deda63b3f36e4",
|
||||
"sha256:619346d57c7126ae49ac95b11b0dc8e36c1dd49d148477461bb66c8cf13bb521",
|
||||
"sha256:63c424e6f5b4ab1cf1e23a43b12f542b0ec2e54f99ec9f11b75382152981df57",
|
||||
"sha256:6dbc1536e105adda7a6312c778f15aaabe583b0e9a0b0a324990334fd458c94b",
|
||||
"sha256:6e1394d24d5938e561fbeaa0cd3d356207579c28bd1792f25a068743f2d5b282",
|
||||
"sha256:86f2e78b1eff847609b1ca8050c9e1fa3bd44ce755b2ec30e70f2d3ba3844644",
|
||||
"sha256:8bdfe9ff3a4ea37d17f172ac0dff1e1c383aec17a636b9b35906babc9f0f5475",
|
||||
"sha256:8e2c35a4c1f269704e90888e56f794e2d9c0262fb0c1b1c8c4ee44d9b9e77b5d",
|
||||
"sha256:92b8c845527eae547a2a6617d336adc56394050c3ed8a6918683646328fbb6da",
|
||||
"sha256:9365ed5cce5d0cf2c10afc6add145c5037d3148585b8ae0e77cc1efdd6aa2953",
|
||||
"sha256:9a29311bd6429be317c1f3fe4bc06c4c5ee45e2fa61b2a19d4d1d6111cb94af2",
|
||||
"sha256:9a2b5b52be0a8626fcbffd7e689781bf8c2ac01613e77feda93d96184949a98e",
|
||||
"sha256:a4bdeb0a52d1d04123b41d90a4390b096f3ef38eee35e11f0b22c2d031222c6c",
|
||||
"sha256:a9c8c4283e17690ff1a7427123ffb428ad6a52ed720d550e299e8291e33184dc",
|
||||
"sha256:b637c57fdb8be84e91fac60d9325a66a5981f8086c954ea2772efe28425eaf64",
|
||||
"sha256:bf154ba7ee2fd613eb541c2bc03d3d9ac667080a737449d1a3fb342740eb1a74",
|
||||
"sha256:c254b03032d5a06de049ce8bca8338a5185f07fb76600afff3c161e053d88617",
|
||||
"sha256:c332d8f8d448ded473b97fefe4a0983265af21917d8b0cdcb8bb06b2afe632c3",
|
||||
"sha256:c7912d1526299cb04c88288e148c6c87c0df600eca76efd99d84396cfe00ef1d",
|
||||
"sha256:cfd9386c1d6f13b37e05a91a8583e802f8059bebfccde61a418c5808dea6bbfa",
|
||||
"sha256:d5d2033d5db1d58ae2d62f095e1aefb6988af65b4b12cb8987af409587cc0739",
|
||||
"sha256:dca38a21e4423f3edb821292e97cec7ad38086f84313462098568baedf4331f8",
|
||||
"sha256:e2cad8093172b7d1595b4ad66f24270808658e11acf43a8f95b41276162eb5b8",
|
||||
"sha256:e3db840a4dee542e37e09f30859f1612da90e1c5239a6a2498c473183a50e781",
|
||||
"sha256:edcada2e24ed68f019175c2b2af2a8b481d3d084798b8c20d15d34f5c733fa58",
|
||||
"sha256:f467bbb837691ab5a8ca359199d3429a11a01e6dfb3d9dcc676dc035ca93c0a9",
|
||||
"sha256:f506af4f27def639ba45789fa6fde45f9a217da0be05f8910458e4557eed020c",
|
||||
"sha256:f614fc9956d76d8a88a88bb41ddc12709caa755666f580af3a688899721efecd",
|
||||
"sha256:f9afb5b746781fc2abce26193d1c817b7eb0e11459510fba65d2bd77fe161d9e",
|
||||
"sha256:fb8b8ee99b3fffe4fd86f4c81b35a6bf7e4462cba019997af2fe679365db0c49"
|
||||
],
|
||||
"index": "pypi",
|
||||
"version": "==6.1.2"
|
||||
"version": "==6.2"
|
||||
},
|
||||
"iniconfig": {
|
||||
"hashes": [
|
||||
|
|
|
|||
|
|
@ -9,6 +9,8 @@ class Script(object):
|
|||
""" Provides an abstract class that defines how scripts should work, this
|
||||
must be extended in all Script Tasks."""
|
||||
|
||||
SUB_CLASSES = []
|
||||
|
||||
def get_description(self):
|
||||
raise ApiError("invalid_script",
|
||||
"This script does not supply a description.")
|
||||
|
|
@ -23,8 +25,9 @@ class Script(object):
|
|||
"This is an internal error. The script you are trying to execute '%s' " % self.__class__.__name__ +
|
||||
"does must provide a validate_only option that mimics the do_task, " +
|
||||
"but does not make external calls or database updates." )
|
||||
|
||||
@staticmethod
|
||||
def generate_augmented_list(task, study_id,workflow_id):
|
||||
def generate_augmented_list(task, study_id, workflow_id):
|
||||
"""
|
||||
this makes a dictionary of lambda functions that are closed over the class instance that
|
||||
They represent. This is passed into PythonScriptParser as a list of helper functions that are
|
||||
|
|
@ -77,9 +80,12 @@ class Script(object):
|
|||
workflow_id)
|
||||
return execlist
|
||||
|
||||
@staticmethod
|
||||
def get_all_subclasses():
|
||||
return Script._get_all_subclasses(Script)
|
||||
@classmethod
|
||||
def get_all_subclasses(cls):
|
||||
# This is expensive to generate, so reuse it if possible.
|
||||
if not cls.SUB_CLASSES:
|
||||
cls.SUB_CLASSES = Script._get_all_subclasses(Script)
|
||||
return cls.SUB_CLASSES
|
||||
|
||||
@staticmethod
|
||||
def _get_all_subclasses(cls):
|
||||
|
|
|
|||
|
|
@ -298,25 +298,15 @@ class StudyService(object):
|
|||
doc['count'] = len(doc_files)
|
||||
doc['files'] = []
|
||||
|
||||
# when we run tests - it doesn't look like the user is available
|
||||
# so we return a bogus token
|
||||
token = 'not_available'
|
||||
if hasattr(flask.g, 'user'):
|
||||
token = flask.g.user.encode_auth_token()
|
||||
for file_model in doc_files:
|
||||
file = File.from_models(file_model, FileService.get_file_data(file_model.id), [])
|
||||
file_data = FileSchema().dump(file)
|
||||
del file_data['document']
|
||||
data = db.session.query(DataStoreModel).filter(DataStoreModel.file_id == file.id).all()
|
||||
data_store_data = {}
|
||||
for d in data:
|
||||
data_store_data[d.key] = d.value
|
||||
file_data["data_store"] = data_store_data
|
||||
doc['files'].append(Box(file_data))
|
||||
# update the document status to match the status of the workflow it is in.
|
||||
if 'status' not in doc or doc['status'] is None:
|
||||
workflow: WorkflowModel = session.query(WorkflowModel).filter_by(id=file.workflow_id).first()
|
||||
doc['status'] = workflow.status.value
|
||||
status = session.query(WorkflowModel.status).filter_by(id=file.workflow_id).scalar()
|
||||
doc['status'] = status.value
|
||||
|
||||
documents[code] = doc
|
||||
return Box(documents)
|
||||
|
|
@ -332,6 +322,7 @@ class StudyService(object):
|
|||
return doc_dict
|
||||
|
||||
@staticmethod
|
||||
|
||||
def get_investigators(study_id, all=False):
|
||||
"""Convert array of investigators from protocol builder into a dictionary keyed on the type. """
|
||||
|
||||
|
|
|
|||
Loading…
Reference in New Issue