diff --git a/migrater_skudal.py b/migrater_skudal.py new file mode 100644 index 000000000..92e38639f --- /dev/null +++ b/migrater_skudal.py @@ -0,0 +1,112 @@ +import os +import sys +import re +import posixpath +import argparse +from pathlib import Path +from shutil import copyfile +import yaml + +name_reg = re.compile(r"(/[0-9][0-9]\.)+") + + +def filter_string(string, string_replace='/', regex=name_reg): + return re.sub(regex, string_replace, string) + + +# Input: dirname_from: where you want to migrate from. migrate_rootpath: path including the new root dir of the structure +def transform_wiki(dirname_from, migrate_rootpath): + + # New file structure + Path(migrate_rootpath).mkdir(parents=True, exist_ok=True) + dir_path_new = None + + for root, dirs, files in os.walk('./' + dirname_from, topdown=False): + + # Filter the new names i dst + root_src = root + root_dst = filter_string(root, '/', name_reg) + + # Make a new regural dirs (without bottom dir which is replaced by .md file) + path = '/'.join(root_dst.split('/')[2:-1]) # The path following the root dir (./Pages) + dir_path_new = migrate_rootpath + '/' + path + Path(dir_path_new).mkdir(parents=True, exist_ok=True) + + for file_name in files: + # File path in original structure + file_path_scr = root_src + "/" + file_name + + # Test for only altering .md-files + if not file_name.endswith(".md"): + # Copy other files from scr + src = file_path_scr + dst = '/'.join([dir_path_new, file_name]) + copyfile(src, dst) + continue + + # Open original file + with open(file_path_scr) as f_from: + + try: + # New name convention for .md-files migrated to new structure + new_filepath = dir_path_new + '/' + os.path.basename(root_dst) + '.md' + with open(new_filepath, 'w') as f_to: + lines = [] + yamlfront = [] + inyamlfront = False + for l in f_from: + line = l.rstrip() + if len(lines) == 0 and line.startswith("---"): + inyamlfront = True + elif inyamlfront: + if line.startswith("---"): + inyamlfront = False + print(yamlfront) + front = yaml.load("\n".join(yamlfront)) + if "taxonomy" in front: + taxonomy = front["taxonomy"] + del front["taxonomy"] + tags = [] + if "tags" in taxonomy: + tags = taxonomy["tags"] + if "categories" in taxonomy: + for tag in taxonomy["categories"]: + tags.append("cat:" + tag) + del taxonomy["categories"] + if len(tags) > 0: + taxonomy["tags"] = tags + for k,v in taxonomy.items(): + front[k] = v + del yamlfront[:] + yamlfront.append("---") + yamlfront.append(yaml.dump(front)) + yamlfront.append("---") + else: + yamlfront.append(line) + else: + lines.append(line) + if len(yamlfront) > 0: + for line in yamlfront: + print(line,file=f_to) + for line in lines: + print(line,file=f_to) + + except UnicodeDecodeError: + print("UnocodeError in :" + file_path_scr) + + +if __name__ == "__main__": + ''' + path = 'pages_migrated_example/55.usaa/cvicenia/05.linked.md' + #path = '05.linked.md' + print(path) + path = filter_string(path, '/', name_reg) + print(path) + ''' + + parser = argparse.ArgumentParser() + parser.add_argument("dirname", type=str) + parser.add_argument("migrate_root",type=str) + args = parser.parse_args() + transform_wiki(args.dirname, args.migrate_root) + diff --git a/pages/04.categories/bp2021/category.md b/pages/04.categories/bp2021/category.md index 46c437566..a84c7c541 100644 --- a/pages/04.categories/bp2021/category.md +++ b/pages/04.categories/bp2021/category.md @@ -25,8 +25,3 @@ category: bp2021 - natrénovanie modelu QA s databázy SQUAD? - Využitie existujúceho anglického modelu? -5. Využitie najnovších nástrojov v rámci prirodzeného spracovania reči (@Buday) - - - zoznámiť sa s daným frameworkom a aplikovať už natrénované modely - - pokúsiť sa použiť slovenské dáta na spracovanie prirodzeného jazyka v prostredí zvoleného nástroja - diff --git a/pages/04.categories/bp2022/category.md b/pages/04.categories/bp2022/category.md new file mode 100644 index 000000000..ebeea94b7 --- /dev/null +++ b/pages/04.categories/bp2022/category.md @@ -0,0 +1,76 @@ +--- +title: Bakalárske práce 2021/2022 +category: bp2022 +--- +# Bakalárske práce 2022 + +Ak ste študentom 2. alebo 3. ročníka odboru Počítačové siete na KEMT a máte záujem o niektorú z týchto tém, napíšte e-mail na daniel.hladek@tuke.sk. + +Naučíte sa: + +- niečo o spracovaní prirodzeného jazyka +- vytvárať webové aplikácie +- pracovať s nástrojmi v jazyku Python +- prekonávať technické problémy + +Požiadavky: + +- chcieť sa naučiť niečo nové + +## Témy + +### Automatické odpovede z Wikipédie + +1. Vypracujte prehľad aktuálnych metód pre generovanie odpovede na otázku v prirodzenom jazyku +2. Natrénujte existujúci systém pre generovanie odpovede na otázku v prirodzenom jazyku. +3. Vytvorte demonštračnú webovú aplikáciu. +4. Navrhnite zlepšenia systému pre generovanie odpovede. + +- Natrénujte existujúci systém pre generovanie odpovede na otázku v prirodzenom jazyku. +- Vytvorte demonštračnú webovú aplikáciu. + +### Strojový preklad slovenského jazyka + +- Zoberte existujúci systém pre strojový preklad. +- Pripravte existujúci paralelný korpus pre trénovanie. +- Vytvorte model pre strojový preklad slovenského jazyka. + +1. Vypracujte prehľad aktuálnych metód pre generovanie odpovede na otázku v prirodzenom jazyku +2. Natrénujte existujúci systém pre generovanie odpovede na otázku v prirodzenom jazyku. +3. Vytvorte demonštračnú webovú aplikáciu. +4. Navrhnite zlepšenia systému pre generovanie odpovede. + +### Rozpoznávanie pomenovaných entít v slovenskom jazyku + +- Zlepšite model pre rozpoznávanie pomenovaných entít. +- Anotujte korpus, navrhnite lepší klasifikátor. + +Pomenované entity sú väčšinou vlastné podstatné mená v texte. Ich rozpoznanie nám pomôže určiť o čom text je. To sa často využíva v chatbotoch alebo vo vyhľadávaní v texte. + +1. Vypracujte prehľad metód rpre rozpoznávanie pomenovaných entít v texte. +2. Vyberte vhodnú metódu a natrénujte model pre rozpoznávanie pomenovaných entít. +3. Vykonajte viacero experimentov a zistite s akými parametrami má model najvyššiu presnosť. +4. Navrhnite ďalšie zlepšenia modelu pre rozpoznávanie pomenovaných entít. + +### Vyhľadávač na slovenskom internete + +Databáza dokumentov je k dispozícii. Na vytvorenie indexu je možné použiť Elasticsearch alebo podobný systém. +Dokument je potrebné spracovať pomocou skriptu v jazyku Python alebo Javascript. + +- Vytvorte index pre vyhľadávanie v databáze slovenských stránok (Cassandra, Elasticseaech). +- Vytvorte webové rozhranie k vyhľadávaču. + +1. Vypracujte prehľad metód pre získavanie informácií. +2. Vytvorte vyhľadávací index dokumentov zo slovenského internetu. +3. Vytvorte demonštračnú webovú aplikáciu pre vyhľadávanie na slovenskom internete. +4. Navrhnite zlepšenia vyhľadávania. + +### Model Spacy pre spracovanie prirodzeného jazyka + +Knižnica Spacy je často používaný nástroj na spracovanie prirodzeného jazyka. +Dobrý model slovenčiny pomože pri vývoji virtuálnych asistentov a iných nástrojov. + +1. Zistite ako pracuje knižnica Spacy a opíšte metódy ktoré používa. +2. Natrénujte model pre spracovanie slovenského prirodzeného jazyka. +3. Indentifikujte slabé miesta a zlepšite presnosť spracovania. +4. Vykonajte viacero experimentov a zistite presnosť pri rôznych parametroch. diff --git a/pages/04.categories/dp2022/category.md b/pages/04.categories/dp2022/category.md index bb152a7e4..24395b2f8 100644 --- a/pages/04.categories/dp2022/category.md +++ b/pages/04.categories/dp2022/category.md @@ -4,4 +4,27 @@ category: dp2022 published: true --- +Naučíte sa: + +- Niečo viac o neurónových sieťach. +- Vytvárať jednoduché programy na úpravu dát. +- Zapojiť sa do reálneho výskumu. + +### Morfologická analýza s podporou predtrénovania + +- Zoberte existujúci model pre morfologickú analýzu slovenského jazyka a vyhodnotte ho. +- Použite BERT model na natrénovanie morfologickej anotácie a porovnajte presnosť so základným modelom. + +### Slovné jednotky v predspracovaní pre strojový preklad + +- Natrénujte systém pre strojový preklad +- Vytvorte niekoľko modelov pre rozdelenie slov na menšie jednotky v slovenskom jazyku. Pre každý model rozdelenia slov natrénujte systém pre strojový preklad. +- Porovnajte výsledky strojového prekladu s rôznymi rozdeleniami slov. + + +### Spracovanie veľkých dát pre účely získavania informácií + +- Naučte sa pracovať s databázou Cassandra a Python +- indexujte dáta z webu +- implementujte techniku vyhodnotenia dokumentov diff --git a/pages/04.categories/vp2021/category.md b/pages/04.categories/vp2021/category.md new file mode 100644 index 000000000..d8739f445 --- /dev/null +++ b/pages/04.categories/vp2021/category.md @@ -0,0 +1,41 @@ +--- +title: Vedecký projekt 2020/2021 +category: vp2021 +--- +## Vedecký projekt 2021 + +Príprava na bakalársky projekt pre študentov 2. ročníka programu Počítačové siete. Letný semester. + +Vedúci: Ing. Daniel Hládek PhD. + +Požiadavky: + +- Chuť naučiť sa niečo nové. + +### Dialógový systém pomocou RASA framework + +Cieľom projektu je naučiť sa niečo o dialógových systémoch a oboznámiť sa so základnými nástrojmi. + +- Nainštalujte a oboznámte sa s [RASA frameworkom](https://rasa.com/docs/). Pri inštalácii využite systém [Anaconda](https://docs.anaconda.com/anaconda/user-guide/getting-started/). +- Vyberte a prejdite najmenej jeden tutoriál pre prácu s RASA frameworkom. +- Napíšte krátky report na 2 strany kde napíšete čo ste urobili a čo ste sa dozvedeli. + +### Klaudové služby pre získavanie informácií + +Cieľom projektu je zistiť ako fungujú klaudové služby pre umelú inteligenciu +a ako fungujú webové vyhľadávače. + +- Zistite čo je to získavanie informácií. +- Oboznámte sa s [Azure Cognitive Search](https://azure.microsoft.com/en-us/services/search/) a získajte prístup k službe. Pre prihlásenie môžete použiť Váše študentské prihlasovacie údaje. +- Vypracujte minimálne jeden tutoriál pre prácu s Azure Cognitive Search. +- Vypracujte krátky report na 2 strany kde napíšete čo ste robili a čo ste sa dozvedeli. + +### Rozpoznávanie pomenovaných entít + +Cieľom projektu je zistiť ako sa robia základné úlohy spracovania prirodzeného jazyka - rozpoznávanie vlastných podstatných mien a oboznámenie sa zo základnými nástrojmi. + +- Zistite čo je to pomenovaná entita a prečo je rozpoznávanie pomenovaných entít v prirodzenom jazyku dôležité. +- Vyznačte [pomenované entity v textoch z Wikipédie](https://zp.kemt.fei.tuke.sk/topics/named-entity/navod). +- Nainštalujte si [framework Spacy](https://spacy.io/) a vyskúšajte, ako funguje rozpoznávanie pomenovaných entít v anglickom jazyku. Pri inštalácii využite systém [Anaconda](https://docs.anaconda.com/anaconda/user-guide/getting-started/). +- Napíšte krátku správu na cca 2 strany kde napíšete čo ste robili a čo ste sa dozvedeli. + diff --git a/pages/authors/maros-harahus/author.md b/pages/authors/maros-harahus/author.md new file mode 100644 index 000000000..856a24c4d --- /dev/null +++ b/pages/authors/maros-harahus/author.md @@ -0,0 +1,5 @@ +--- +title: Maroš Harahus +author: Maroš Harahus +--- + diff --git a/pages/home/default.md b/pages/home/default.md index 892d2ec75..cbc54fe8d 100644 --- a/pages/home/default.md +++ b/pages/home/default.md @@ -18,26 +18,39 @@ Wiki stánka pre spoluprácu na záverečných prácach. ## Vedúci - [Daniel Hládek](/authors/daniel-hladek) +- [Maroš Harahus](/authors/maros-harahus) ## Predmety -- [Bakalárske práce 2021](/categories/bp2021) -- [Diplomové práce 2021](/categories/dp2021) -- [Tímový projekt 2021 / Diplomové práce 2022](/categories/tp2021) +- [Diplomové práce 2022](/categories/dp2022) +- [Bakalárske práce 2022](/categories/bp2022) +- Diplomový projekt 2022-Diplomová práca 2023 ## Vedecké projekty - Korpus otázok a odpovedí - [Projektová stránka](/topics/question) - - [Anotujte korpus](/topics/question/navod) + - [Vytvorte otázky a odpovede](/topics/question/navod) + - [Validujte otázky a odpovede](/topics/question/validacie) + - [Vytvorte nezodpovedateľné otázky a odpovede](/topics/question/nezodpovedatelne) - Rozpoznávanie pomenovaných entít - [Projektová stránka](/topics/named-entity) - [Anotujte korpus](/topics/named-entity/navod) - [Podpora slovenčiny v knižnici Spacy](/topics/spacy) +- [Slovenský BERT model](/topics/bert) - [Ostatné projekty](/categories/projects) ## Uzavreté predmety +## 2021 + +- [Bakalárske práce 2021](/categories/bp2021) +- [Vedecký projekt 2021](/categories/vp2021) +- [Bakalárske práce 2021](/categories/bp2021) +- [Diplomové práce 2021](/categories/dp2021) + +## 2020 + - [Výsledky Tímového projektu 2020](/categories/tp2020) - [Bakalárske práce 2020](/categories/bp2020) diff --git a/pages/students/2016/dominik_nagy/README.md b/pages/students/2016/dominik_nagy/README.md index 2bbb2cda9..934e86307 100644 --- a/pages/students/2016/dominik_nagy/README.md +++ b/pages/students/2016/dominik_nagy/README.md @@ -23,6 +23,17 @@ taxonomy: 3. Vyberte minimálne dva rôzne modely a porovnajte ich presnosť na vhodnej dátovej množine. 4. Na základe výsledkov experimentov navrhnite zlepšenia. +Stretnutie 6.7.2021 + +Stav: + +- Podarilo sa rozbehať setup pre trénovanie slovensko anglického prekladu na korpuse 10 viet pomocou fairseq. + +Úlohy: + +- Pokračujte v trénovaní na servri IDOC, použite sakrupt na príápravu prostredia ktorý som Vám dal. +- Pripravte veľký slovensko-anglický paralelný korpus a natrénujte z neho model. +- Model vyhodnotťe pomocou metriky BLEU. Naštudujte si metriku BLEU. ## Príprava na Diplomový projekt 2 2021 @@ -39,6 +50,7 @@ Stav: Do ďalšieho stretnutia: +- Treba zlepšiť teoretickú prípravu a písanie. - Pripraviť slovensko-anglický korpus do podoby vhodnej na trénovanie. Zistite v akej podobe je potrebné dáta mať. - Natrénovať model fairseq pre strojový preklad zo slovenčiny. - Zistite ako prebieha neurónový strojový preklad, čo je to neurónová sieť, čo je to enkóder, dekóder model a napíšte to vlastnými slovami. Napíšte aj odkiaľ ste to zistili. diff --git a/pages/students/2016/jakub_maruniak/README.md b/pages/students/2016/jakub_maruniak/README.md index 120bd2399..eb201e81b 100644 --- a/pages/students/2016/jakub_maruniak/README.md +++ b/pages/students/2016/jakub_maruniak/README.md @@ -14,7 +14,7 @@ taxonomy: Anotácia a rozpoznávanie pomenovaných entít v slovenskom jazyku. - +[CRZP](https://opac.crzp.sk/?fn=detailBiblioForm&sid=ECC3D3F0B3159C4F3217EC027BE4) 1. Vypracujte teoretický úvod, kde vysvetlíte čo je to rozpoznávanie pomenovaných entít a akými najnovšími metódami sa robí. Vysvetlite, ako pracuje klasifikátor pre rozpoznávanie pomenovaných entít v knižnici Spacy. 2. Pripravte postup na anotáciu textového korpusu pre systém Prodigy pre trénovanie modelu vo vybranej úlohe spracovania prirodzeného jazyka. diff --git a/pages/students/2016/jakub_maruniak/dp2021/annotation/README.md b/pages/students/2016/jakub_maruniak/dp2021/annotation/README.md index 0fc2f8fd4..e0846d1c2 100644 --- a/pages/students/2016/jakub_maruniak/dp2021/annotation/README.md +++ b/pages/students/2016/jakub_maruniak/dp2021/annotation/README.md @@ -20,12 +20,28 @@ winpty docker run --name prodigy -it -p 8080:8080 -v C://Users/jakub/Desktop/ann Pozn. aby --eval-split fungoval správne, je potrebné v inštalácii prodigy (cestu zistíme pomocou `prodigy stats`) v súbore `recipes/train.py` upraviť funkciu `data_to_spacy` (mal by byť riadok 327). V novej verzii by to malo byť opravené. Do riadku treba pridať parameter eval_split. `json_data, eval_data, split = train_eval_split(json_data, eval_split)` +### Anotované databázy +- `./ner/skner/sknerv4.jsonl` - Aktuálna anotovaná databáza z https://skner.tukekemt.xyz/ (Celkovo cca 5000 článkov) +- `./ner/wikiart/wikiart2.jsonl` - Vlastná databáza, články rozdelené na vety (Celkovo cca 1300 viet) +- Presná štatistika o databázach bude doplnená + ### Štatistika o anotovaných dátach - `prodigy stats wikiart` - informácie o počte prijatých a odmietnutých článkov pre konkrétny dataset v prodigy -- `python3 count.py` - Tabuľka pre informáciu o počte prijatých, odmietnutých a preskočených článkov z databázy. Taktiež informácia o množstve jednotlivých entít. + +### Vizualizácia anotovaných dát +- `streamlit run visualizer.py visualize ./dataset.jsonl` - Vypíše anotácie zo zvolenej databázy na lokálnej adrese http://192.168.1.26:8501 ### Trénovanie modelu Založené na: https://git.kemt.fei.tuke.sk/dano/spacy-skmodel +- Na trénovanie NER využitá vstavaná funkcia spacy train +- Testované aj s custom skriptom na trénovanie - `custom_train.py` - približne rovnaké výsledky, neporovnateľne dlhší čas trénovania -### Štatistika o trénovaní -Po natrénovaní modelu vidíme iba skóre pre celý model. Aby sme sa dozvedeli informáciu o presnosti trénovania jednotlivých entít, využijeme `modelinfo.sh` + +### Scripts +`python scripts.py [command] [arguments]` + +| Príkaz | Popis | Argumenty | +| ---------- | ------------------ | ------------------- | +| `count` | Vypíše štatistiky o databáze vo formáte JSONL z Prodigy.| dataset_path| +| `delete_annot` | Vytvorí samostatnú databázu s anotáciami iba od zvoleného anotátora.| annotator, dataset_path, new_dataset_path| +| `modelinfo`| Vypíše informácie o natrénovanom modeli (Precision, Recall a F-skóre), zároveň aj o jednotlivých entitách. | - | diff --git a/pages/students/2016/jakub_maruniak/dp2021/annotation/count.py b/pages/students/2016/jakub_maruniak/dp2021/annotation/count.py deleted file mode 100644 index 0178df39d..000000000 --- a/pages/students/2016/jakub_maruniak/dp2021/annotation/count.py +++ /dev/null @@ -1,60 +0,0 @@ -# load data - -filename = 'ner/skner/skner.jsonl' -file = open(filename, 'rt', encoding='utf-8') -text = file.read() - -# count articles -countAccept = text.count('accept') -countReject = text.count('reject') -countSkip = text.count('ignore') -countSpans = text.count('tokens') -# count entities -countPER = text.count('PER') -countLOC = text.count('LOC') -countORG = text.count('ORG') -countMISC = text.count('MISC') - -underline = '\033[04m' -reset = '\033[0m' -red = '\033[31m' -green='\033[32m' -gray='\033[37m' - -# table v1 -#from lib import TableIt -#table1 = [ -# ['Prijatých', countAccept], -# ['Zamietnutých', countReject], -# ['Preskočených', countSkip], -# ['------------', '------------'], -# ['Spolu', countSpans] -#] -# -#table = [ -# ['Entita', 'Počet'], -# ['PER', countPER], -# ['LOC', countLOC], -# ['ORG', countORG], -# ['MISC', countMISC] -#] -#print('\nPočet anotovaných článkov:') -#TableIt.printTable(table1) -#print('\nPočet jednotlivých entít:') -#TableIt.printTable(table, useFieldNames=True, color=(26, 156, 171)) - -# table v2 -print(underline + '\nPočet anotovaných článkov:' + reset) -print(green + "%-15s %-20s" %("Prijatých", countAccept) + reset) -print(red + "%-15s %-15s" %("Zamietnutých", countReject) + reset) -print(gray + "%-15s %-15s" %("Preskočených", countSkip) + reset) -print("%-15s" %("---------------------")) -print("%-15s %-15s" %("Spolu", countSpans)) - -print(underline + '\nPočet jednotlivých entít:' + reset) -print("%-10s %-10s" %("Entita:", "Počet:")) -print("%-10s" %("----------------")) -print("%-10s %-10s" %("PER", countPER)) -print("%-10s %-10s" %("LOC", countLOC)) -print("%-10s %-10s" %("ORG", countORG)) -print("%-10s %-10s" %("MISC", countMISC)) \ No newline at end of file diff --git a/pages/students/2016/jakub_maruniak/dp2021/annotation/custom_train.py b/pages/students/2016/jakub_maruniak/dp2021/annotation/custom_train.py new file mode 100644 index 000000000..f8c3f01fb --- /dev/null +++ b/pages/students/2016/jakub_maruniak/dp2021/annotation/custom_train.py @@ -0,0 +1,152 @@ +"""Scripts used for training and evaluation of NER models +Usage example: +$ python custom_train.py train ./model ./train.jsonl ./eval.jsonl -o ./output_dir -n 15 +Requirements: +spacy>=2.2.3 +https://github.com/explosion/projects/tree/master/ner-drugs +""" +import spacy +from spacy.cli.train import _load_pretrained_tok2vec +from timeit import default_timer as timer +from pathlib import Path +import srsly +from wasabi import msg +import random +import plac +import sys +import tqdm + + +def format_data(data): + result = [] + labels = set() + for eg in data: + if eg["answer"] != "accept": + continue + ents = [(s["start"], s["end"], s["label"]) for s in eg.get("spans", [])] + labels.update([ent[2] for ent in ents]) + result.append((eg["text"], {"entities": ents})) + return result, labels + + +@plac.annotations( + model=("The base model to load or blank:lang", "positional", None, str), + train_path=("The training data (Prodigy JSONL)", "positional", None, str), + eval_path=("The evaluation data (Prodigy JSONL)", "positional", None, str), + n_iter=("Number of iterations", "option", "n", int), + output=("Optional output directory", "option", "o", str), + tok2vec=("Pretrained tok2vec weights to initialize model", "option", "t2v", str), +) +def train_model( + model, train_path, eval_path, n_iter=10, output=None, tok2vec=None, +): + """ + Train a model from Prodigy annotations and optionally save out the best + model to disk. + """ + spacy.util.fix_random_seed(0) + with msg.loading(f"Loading '{model}'..."): + if model.startswith("blank:"): + nlp = spacy.blank(model.replace("blank:", "")) + else: + nlp = spacy.load(model) + msg.good(f"Loaded model '{model}'") + train_data, labels = format_data(srsly.read_jsonl(train_path)) + eval_data, _ = format_data(srsly.read_jsonl(eval_path)) + ner = nlp.create_pipe("ner") + for label in labels: + ner.add_label(label) + nlp.add_pipe(ner) + t2v_cfg = { + "embed_rows": 10000, + "token_vector_width": 128, + "conv_depth": 8, + "nr_feature_tokens": 3, + } + optimizer = nlp.begin_training(component_cfg={"ner": t2v_cfg} if tok2vec else {}) + if tok2vec: + _load_pretrained_tok2vec(nlp, Path(tok2vec)) + batch_size = spacy.util.compounding(1.0, 32.0, 1.001) + best_acc = 0 + best_model = None + row_widths = (2, 8, 8, 8, 8) + msg.row(("#", "L", "P", "R", "F"), widths=row_widths) + for i in range(n_iter): + random.shuffle(train_data) + losses = {} + data = tqdm.tqdm(train_data, leave=False) + for batch in spacy.util.minibatch(data, size=batch_size): + texts, annots = zip(*batch) + nlp.update(texts, annots, drop=0.2, losses=losses) + with nlp.use_params(optimizer.averages): + sc = nlp.evaluate(eval_data) + if sc.ents_f > best_acc: + best_acc = sc.ents_f + if output: + best_model = nlp.to_bytes() + acc = (f"{sc.ents_p:.3f}", f"{sc.ents_r:.3f}", f"{sc.ents_f:.3f}") + msg.row((i + 1, f"{losses['ner']:.2f}", *acc), widths=row_widths) + msg.text(f"Best F-Score: {best_acc:.3f}") + if output and best_model: + with msg.loading("Saving model..."): + nlp.from_bytes(best_model).to_disk(output) + msg.good("Saved model", output) + + +@plac.annotations( + model=("The model to evaluate", "positional", None, str), + eval_path=("The evaluation data (Prodigy JSONL)", "positional", None, str), +) +def evaluate_model(model, eval_path): + """ + Evaluate a trained model on Prodigy annotations and print the accuracy. + """ + with msg.loading(f"Loading model '{model}'..."): + nlp = spacy.load(model) + data, _ = format_data(srsly.read_jsonl(eval_path)) + sc = nlp.evaluate(data) + result = [ + ("Precision", f"{sc.ents_p:.3f}"), + ("Recall", f"{sc.ents_r:.3f}"), + ("F-Score", f"{sc.ents_f:.3f}"), + ] + msg.table(result) + + +@plac.annotations( + model=("The model to evaluate", "positional", None, str), + data=("Raw data as JSONL", "positional", None, str), +) +def wps(model, data): + """ + Measure the processing speed in words per second. It's recommended to + use a larger corpus of raw text here (e.g. a few million words). + """ + with msg.loading(f"Loading model '{model}'..."): + nlp = spacy.load(model) + texts = (eg["text"] for eg in srsly.read_jsonl(data)) + n_docs = 0 + n_words = 0 + start_time = timer() + for doc in nlp.pipe(texts): + n_docs += 1 + n_words += len(doc) + end_time = timer() + wps = int(n_words / (end_time - start_time)) + result = [ + ("Docs", f"{n_docs:,}"), + ("Words", f"{n_words:,}"), + ("Words/s", f"{wps:,}"), + ] + msg.table(result, widths=(7, 12), aligns=("l", "r")) + + +if __name__ == "__main__": + opts = {"train": train_model, "evaluate": evaluate_model, "wps": wps} + cmd = sys.argv.pop(1) + if cmd not in opts: + msg.fail(f"Unknown command: {cmd}", f"Available: {', '.join(opts)}", exits=1) + try: + plac.call(opts[cmd]) + except KeyboardInterrupt: + msg.warn("Stopped.", exits=1) \ No newline at end of file diff --git a/pages/students/2016/jakub_maruniak/dp2021/annotation/modelinfo.sh 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b/pages/students/2016/jakub_maruniak/dp2021/annotation/ner/wikiart/wikiart2.tar.gz differ diff --git a/pages/students/2016/jakub_maruniak/dp2021/annotation/scripts.py b/pages/students/2016/jakub_maruniak/dp2021/annotation/scripts.py new file mode 100644 index 000000000..ea6b21544 --- /dev/null +++ b/pages/students/2016/jakub_maruniak/dp2021/annotation/scripts.py @@ -0,0 +1,160 @@ +""" +Usage example: +$ python scripts.py delete_annot jakub.maruniak ./dataset.jsonl ./new_dataset.jsonl + +To see available commands: +$ python scripts.py help + +To see available arguments: +$ python scripts.py [command] --help +""" +import spacy +import srsly +from wasabi import msg +import plac +import sys +import re +import itertools + +@plac.annotations( + dataset_path=("Path to dataset (Prodigy JSONL format)", "positional", None, str), +) +def count( + dataset_path +): + """ + Print statistics about Prodigy JSONL dataset. + Prints number of accepted, rejected and ignored articles. + Prints number of annotations of each entity type. + Prints how much annotations were made by each annotator. + """ + # load data + # filename = 'ner/skner/sknerv4spans.jsonl' + file = open(sys.argv[1], 'rt', encoding='utf-8') + text = file.read() + + # count articles + countAccept = text.count('accept') + countReject = text.count('reject') + countSkip = text.count('ignore') + countSpans = text.count('tokens') + # count entities + countPER = text.count('PER') + countLOC = text.count('LOC') + countORG = text.count('ORG') + countMISC = text.count('MISC') + + underline = '\033[04m' + reset = '\033[0m' + red = '\033[31m' + green='\033[32m' + gray='\033[37m' + + # table v1 + #from lib import TableIt + #table1 = [ + # ['Prijatých', countAccept], + # ['Zamietnutých', countReject], + # ['Preskočených', countSkip], + # ['------------', '------------'], + # ['Spolu', countSpans] + #] + # + #table = [ + # ['Entita', 'Počet'], + # ['PER', countPER], + # ['LOC', countLOC], + # ['ORG', countORG], + # ['MISC', countMISC] + #] + #print('\nPočet anotovaných článkov:') + #TableIt.printTable(table1) + #print('\nPočet jednotlivých entít:') + #TableIt.printTable(table, useFieldNames=True, color=(26, 156, 171)) + + # table v2 + print(underline + '\nPočet anotovaných článkov:' + reset) + print(green + "%-15s %-20s" %("Prijatých", countAccept) + reset) + print(red + "%-15s %-15s" %("Zamietnutých", countReject) + reset) + print(gray + "%-15s %-15s" %("Preskočených", countSkip) + reset) + print("%-15s" %("---------------------")) + print("%-15s %-15s" %("Spolu", countSpans)) + + print(underline + '\nPočet jednotlivých entít:' + reset) + print("%-10s %-10s" %("Entita:", "Počet:")) + print("%-10s" %("----------------")) + print("%-10s %-10s" %("PER", countPER)) + print("%-10s %-10s" %("LOC", countLOC)) + print("%-10s %-10s" %("ORG", countORG)) + print("%-10s %-10s" %("MISC", countMISC)) + + # kto anotoval koľko? + frequency = {} + #Open the sample text file in read mode. + #document_text = open('sample.txt', 'r') + #convert the string of the document in lowercase and assign it to text_string variable. + #text = document_text.read().lower() + regex1 = '"_session_id":(.*?),' + pattern = re.findall(regex1, text) + for word in pattern: + count = frequency.get(word,0) + frequency[word] = count + 1 + frequency_list = frequency.keys() + print(underline + '\nKto anotoval koľko článkov?' + reset) + for words in frequency_list: + print(words, frequency[words]) + + +@plac.annotations( + annotator=("Keep annotations from this annotator (email address or nickname)", "positional", None, str), + dataset_path=("Path to dataset (Prodigy JSONL format)", "positional", None, str), + new_dataset_path=("Path to save new dataset(Prodigy JSONL format)", "positional", None, str), +) +def delete_annot( + annotator, dataset_path, new_dataset_path +): + """ + Load Prodigy JSONL dataset, + and keep annotations only from one annotator. + """ + file1 = open(sys.argv[2], 'r', encoding='utf-8') + file2 = open(sys.argv[3],'w', encoding='utf-8') + + for line in file1.readlines(): + x = re.findall(sys.argv[1], line) + if x: + print(line) + file2.write(line) + + file1.close() + file2.close() + +def modelinfo( +): + """ + Print information about trained model (Precision, Recall and F-Score) + """ + with open('build/train/nerposparser/model-best/meta.json', 'rt') as f: + for line in itertools.islice(f, 31, 54): + print(line, end =" ") + +def helpme( +): + print("Available commands:", + "\ncount - Print statistics about Prodigy JSONL dataset", + "\ndelete_annot - Create dataset with annotations from only specific annotator", + "\nmodelinfo - Prints informations about trained model (Precision, Recall and F-Score)") + + +if __name__ == "__main__": + opts = {"count": count, + "delete_annot": delete_annot, + "modelinfo": modelinfo, + "help": helpme} + cmd = sys.argv.pop(1) + if cmd not in opts: + msg.fail(f"Unknown command: {cmd}", f"Available: {', '.join(opts)}", exits=1) + try: + plac.call(opts[cmd]) + except KeyboardInterrupt: + msg.warn("Stopped.", exits=1) \ No newline at end of file diff --git a/pages/students/2016/jakub_maruniak/dp2021/annotation/train/train.sh b/pages/students/2016/jakub_maruniak/dp2021/annotation/train.sh similarity index 58% rename from pages/students/2016/jakub_maruniak/dp2021/annotation/train/train.sh rename to pages/students/2016/jakub_maruniak/dp2021/annotation/train.sh index 6c4f40d8a..ba731b8d6 100644 --- a/pages/students/2016/jakub_maruniak/dp2021/annotation/train/train.sh +++ b/pages/students/2016/jakub_maruniak/dp2021/annotation/train.sh @@ -1,8 +1,10 @@ set -e OUTDIR=build/train/output TRAINDIR=build/train + # Delete old training results rm -r $TRAINDIR + mkdir -p $TRAINDIR mkdir -p $OUTDIR mkdir -p dist @@ -13,9 +15,10 @@ spacy train sk $OUTDIR ./build/input/slovak-treebank ./build/input/ud-artificial rm -rf $TRAINDIR/posparser mv $OUTDIR/model-best $TRAINDIR/posparser # Train NER -# python ./train.py -t ./train.json -o $TRAINDIR/nerposparser -n 10 -m $TRAINDIR/posparser/ -spacy train sk $TRAINDIR/nerposparser ./ner/wikiart/wikitrain.json ./ner/wikiart/wikieval.json --n-iter 15 -p ner +# custom script for training, but it takes too long... input is JSONL file (db from Prodigy) +# python custom_train.py train ./build/train/posparser ./train.jsonl ./eval.jsonl -o ./build/train/nerposparser -n 15 +spacy train sk $TRAINDIR/nerposparser ./ner/experiments/34sknerfull.json ./ner/experiments/34wikiartfull.json --n-iter 15 -p ner # Package model spacy package $TRAINDIR/nerposparser dist --meta-path ./meta.json --force cd dist/sk_sk1-0.2.0 -python ./setup.py sdist --dist-dir ../ \ No newline at end of file +python ./setup.py sdist --dist-dir ../ diff --git a/pages/students/2016/jakub_maruniak/dp2021/annotation/train/prepare.sh b/pages/students/2016/jakub_maruniak/dp2021/annotation/train/prepare.sh deleted file mode 100644 index ade40371f..000000000 --- a/pages/students/2016/jakub_maruniak/dp2021/annotation/train/prepare.sh +++ /dev/null @@ -1,19 +0,0 @@ -mkdir -p build -mkdir -p build/input -# Prepare Treebank -mkdir -p build/input/slovak-treebank -spacy convert ./sources/slovak-treebank/stb.conll ./build/input/slovak-treebank -# UDAG used as evaluation -mkdir -p build/input/ud-artificial-gapping -spacy convert ./sources/ud-artificial-gapping/sk-ud-crawled-orphan.conllu ./build/input/ud-artificial-gapping -# Prepare skner -mkdir -p build/input/skner -# Convert to IOB -cat ./sources/skner/wikiann-sk.bio | python ./sources/bio-to-iob.py > build/input/skner/wikiann-sk.iob -# Split to train test -cat ./build/input/skner/wikiann-sk.iob | python ./sources/iob-to-traintest.py ./build/input/skner/wikiann-sk -# Convert train and test -mkdir -p build/input/skner-train -spacy convert -n 15 --converter ner ./build/input/skner/wikiann-sk.train ./build/input/skner-train -mkdir -p build/input/skner-test -spacy convert -n 15 --converter ner ./build/input/skner/wikiann-sk.test ./build/input/skner-test diff --git a/pages/students/2016/jakub_maruniak/dp2021/annotation/visualizer.py b/pages/students/2016/jakub_maruniak/dp2021/annotation/visualizer.py new file mode 100644 index 000000000..a44fa7ea0 --- /dev/null +++ b/pages/students/2016/jakub_maruniak/dp2021/annotation/visualizer.py @@ -0,0 +1,80 @@ +""" +Visualize the data with Streamlit and spaCy. +https://github.com/explosion/projects/blob/master/ner-drugs/streamlit_visualizer.py + +Usage example: +$ streamlit run visualizer.py visualize ./dataset.jsonl +""" +import streamlit as st +from spacy import displacy +import srsly +import sys +import plac +from wasabi import msg + +@plac.annotations( + dataset_path=("Path to dataset (Prodigy JSONL format)", "positional", None, str), +) +def visualize( + dataset_path +): + FILES = [sys.argv[1]] + MISC = "MISC" + + HTML_WRAPPER = "