From d19805af973318531fbd9eee16ad4f1d8655ef2f Mon Sep 17 00:00:00 2001 From: andela_ookoro Date: Wed, 22 Nov 2017 16:38:37 +0100 Subject: [PATCH 1/2] slack notification when scraper takes more then 30 mins --- .github/ISSUE_TEMPLATE.md | 18 + .github/PULL_REQUEST_TEMPLATE.md | 25 + .gitignore | 8 + CONTRIBUTING.md | 114 ++++ README.md | 49 +- healthtools/config.py | 56 +- healthtools/handle_s3_objects.py | 100 +++ healthtools/lib/__init__.py | 0 .../serializer.py => lib/json_serializer.py} | 0 healthtools/scrapers/base_scraper.py | 606 ++++++++++-------- healthtools/scrapers/clinical_officers.py | 25 +- healthtools/scrapers/doctors.py | 17 +- healthtools/scrapers/foreign_doctors.py | 16 +- healthtools/scrapers/health_facilities.py | 167 ++--- healthtools/scrapers/nhif_inpatient.py | 80 ++- healthtools/scrapers/nhif_outpatient.py | 87 ++- healthtools/scrapers/nhif_outpatient_cs.py | 76 +-- healthtools/tests/__init__.py | 57 ++ .../tests/dummy_files/clinical_officers.json | 2 +- healthtools/tests/dummy_files/doctors.json | 2 +- .../tests/dummy_files/foreign_doctors.json | 2 +- .../tests/dummy_files/health_facilities.json | 2 +- .../tests/dummy_files/nhif_inpatient.json | 2 +- .../tests/dummy_files/nhif_outpatient.json | 2 +- .../tests/dummy_files/nhif_outpatient_cs.json | 2 +- healthtools/tests/test_scrapers.py | 224 ++++--- requirements.txt | 8 +- runtime.txt | 2 +- scraper.py | 134 +++- 29 files changed, 1292 insertions(+), 591 deletions(-) create mode 100644 .github/ISSUE_TEMPLATE.md create mode 100644 .github/PULL_REQUEST_TEMPLATE.md create mode 100644 CONTRIBUTING.md create mode 100644 healthtools/handle_s3_objects.py create mode 100644 healthtools/lib/__init__.py rename healthtools/{scrapers/serializer.py => lib/json_serializer.py} (100%) diff --git a/.github/ISSUE_TEMPLATE.md b/.github/ISSUE_TEMPLATE.md new file mode 100644 index 0000000..6126eee --- /dev/null +++ b/.github/ISSUE_TEMPLATE.md @@ -0,0 +1,18 @@ +## Description +A clear and concise description of what the issue is about. + +## Screenshots + + +## Files +A list of relevant files for this issue. This will help people navigate the project and offer some clues of where to start. + +## To Reproduce +If this issue is describing a bug, include some steps to reproduce the behavior. + +## Tasks +Include specific tasks in the order they need to be done in. Include links to specific lines of code where the task should happen at. +- [ ] Task 1 +- [ ] Task 2 +- [ ] Task 3 + diff --git a/.github/PULL_REQUEST_TEMPLATE.md b/.github/PULL_REQUEST_TEMPLATE.md new file mode 100644 index 0000000..d39b37f --- /dev/null +++ b/.github/PULL_REQUEST_TEMPLATE.md @@ -0,0 +1,25 @@ +## Description + +Please include a summary of the change and which issue is fixed. Please also include relevant motivation and context. List any dependencies that are required for this change. + +Fixes # (issue) + +## Type of change + +Please delete options that are not relevant. + +- [ ] Bug fix (non-breaking change which fixes an issue) +- [ ] New feature (non-breaking change which adds functionality) +- [ ] Breaking change (fix or feature that would cause existing functionality to not work as expected) +- [ ] This change requires a documentation update + + +## Screenshots + + +## Checklist: + +- [ ] My code follows the style guidelines of this project +- [ ] I have performed a self-review of my own code +- [ ] I have commented my code, particularly in hard-to-understand areas +- [ ] I have made corresponding changes to the documentation diff --git a/.gitignore b/.gitignore index 0595121..661b90c 100644 --- a/.gitignore +++ b/.gitignore @@ -1,2 +1,10 @@ *.pyc /data/ +/.gtm/ + +# Environment settings +.*env +venv +*.DS_Store +# visual studio code config +.vscode diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md new file mode 100644 index 0000000..00aa689 --- /dev/null +++ b/CONTRIBUTING.md @@ -0,0 +1,114 @@ +# Introduction + +You are here to help on HealthTools Kenya Scraper? Awesome, feel welcome and read the following +sections in order to know what and how to work on something. If you get stuck +at any point you can create a ticket on +[GitHub](https://github.com/CodeForAfrica-SCRAPERS/healthtools_ke/issues). + +All members of our community are expected to follow our +[Code of Conduct](https://github.com/CodeForAfrica/CodeOfConduct). Please make +sure you are welcoming and friendly in all of our spaces. + +Following these guidelines helps to communicate that you respect the time of +the developers managing and developing this open source project. In return, +they should reciprocate that respect in addressing your issue, assessing +changes, and helping you finalize your pull requests. + +## Types of Contributions + +You can contribute in many ways. For example, you might: +* Add documentation and "how-to" articles in the [README](README.md) or the wiki +* Suggest Enhancements +* Fix issues +* Submit Bug reports + +#### Bug Reports +*If you find a security vulnerability, **DO NOT** open an issue. Email +[security@codeforafrica.org](mailto:security@codeforafrica.org) instead.* + +If you're reporting a bug, please include: +* Your operating system name and version +* Any details about your local setup that might be helpful in troubleshooting. +* If you can, provide detailed steps to reproduce the bug. +* If you don't have steps to reproduce the bug, just note your observations in + as much detail as you can. Questions to start a discussion about the issue + are welcome. + +To ease the process of reporting bugs and issues, consider using our +[issue template](https://github.com/CodeForAfrica-SCRAPERS/healthtools_ke/blob/master/.github/ISSUE_TEMPLATE.md) +and don't forget to add an appropriate +[label](https://help.github.com/articles/creating-a-label/) to the issue. + +#### Writing Documentation +Did you find a typo? Do you think that something should be clarified? Go ahead +and suggest a documentation patch. HealthTools could always use more documentation, +whether as part of the official docs, in docstrings, or even on the web in blog +posts, wiki, articles, and such. + +#### Fixing Issues +Look through the GitHub issues for bugs. Anything tagged with "bug" is open to +whoever wants to implement it. + +#### Suggesting Enhancements + +Before creating enhancement suggestions, please check the issues list as you +might find out that you don't need to create one. When you are creating an +enhancement suggestion fill out the +[issue template](https://github.com/CodeForAfrica-SCRAPERS/healthtools_ke/blob/master/.github/ISSUE_TEMPLATE.md) +and [label](https://help.github.com/articles/creating-a-label/) the issue as a +new feature. + +## Your first contribution + +Unsure where to begin contributing to HealthTools Kenya Scraper? You can start by looking through +these `beginner` and `help-wanted` issues: + +* `Beginner issues` - issues which should only require a few lines of code, and a + test or two. +* `Help wanted issues` - issues which should be a bit more involved than beginner + issues. + +Once your changes and tests are ready to submit for review: + +1. Test your changes + + Run the tests if you have any and at the bare minimum, test your changes + manually. + +2. Rebase your changes + + Update your local repository with the most recent code from the main healthtools_ke + repository, and rebase your branch on top of the latest develop branch. + +3. Submit a pull request + + Push your local changes to your forked copy of the repository and submit a + pull request. In the pull request, choose a title which sums up the changes + that you have made, and in the body provide more details about what your + changes do. Also mention the number of the issue where discussion has taken + place. Preferably use our + [PR template](https://github.com/CodeForAfrica-SCRAPERS/healthtools_ke/blob/master/PULL_REQUEST_TEMPLATE.md). + + Then sit back and wait. There will probably be discussion about the pull + request and, if any changes are needed, we would love to work with you to + get your pull request merged into healthtools_ke. + +## Code Style + +Please adhere to the [PEP8](https://www.python.org/dev/peps/pep-0008/) Coding +conventions for the Python language. This style guide evolves over time as +additional conventions are identified and past conventions are rendered obsolete +by changes in the language itself. Ensure to keep updated. + +## Ground Rules +The goal is to maintain a diverse community that's pleasant for everyone. +That's why we would greatly appreciate it if everyone contributing to and +interacting with the community also followed this +[Code of Conduct](https://github.com/CodeForAfrica/CodeOfConduct). +The [Code of Conduct](https://github.com/CodeForAfrica/CodeOfConduct) covers our +behavior as members of the community, in any forum, mailing list, wiki, website, +Internet relay chat (IRC), public meeting or private correspondence. + + + +Please see [contribution-guide.org](http://www.contribution-guide.org) for details on what we expect from contributors. Thanks! diff --git a/README.md b/README.md index 98fcd1a..3f82f73 100644 --- a/README.md +++ b/README.md @@ -1,6 +1,6 @@ -# Healthtools Kenya +# HealthTools Kenya Scraper -This is a suite of scrapers that retrieve actionable information for citizens to use. +This is a suite of scrapers that retrieve actionable information for citizens to use. All the data scraped by this is accessible through our [HealthTools API](https://github.com/CodeForAfricaLabs/HealthTools.API). They retrieve data from the following sites: @@ -18,13 +18,25 @@ They currently run on [morph.io](http://morph.io) but you are able to set it up These instructions will get you a copy of the project up and running on your local machine for development and testing purposes. +### How the Scrapers Work + +To get the data we follow a couple of steps: + +**1. Start by scraping the websites:** This is done in most cases using beautiful soup. +**2. Elasticsearch update:** Replace data on elasticsearch with the new one. We only delete the documents after succesful completion of the scraping and not before. In the doctors' case, because we pull together foreign and local doctors, we won't update elasticsearch until both have been scraped succesfully. +**3. Archive the data:** We archive the data in a "latest" .json file so that the url doesn't have to change to get the latest version in a "dump" format. A date-stamped archive is also stored as we later intend to do some analysis on the changes over time. + + +Should the scraper fail at any of these points, we print out an error, and if set up, a Slack notification is sent. + + ### Installing Clone the repo from Github by running `$ git clone git@github.com:CodeForAfrica-SCRAPERS/healthtools_ke.git`. Change directory into the package `$ cd healthtools_ke`. -Install the dependencies by running `$ pip install requirements.txt`. +Install the dependencies by running `$ pip install -r requirements.txt`. You can set the required environment variables like so @@ -44,7 +56,28 @@ For linux and windows users, follow instructions from this [link](https://www.el For mac users, run `$ brew install elasticsearch` on your terminal. -#### Slack +#### Error Handling + +As with anything beyond our control (the websites we are scraping), we try to catch all errors and display useful and actionable information about them. + +As such, we capture the following details: + +- Timestamp +- Machine name +- Module / Scraper name + function name +- Error message + +This data is printed in terminal in the following way: + + [ Timestamp ] { Module / Scraper Name } + [ Timestamp ] Scraper has started. + [ Timestamp ] ERROR: { Module / Scraper Name } / { function name } + [ Timestamp ] ERROR: { Error message } + + +We also provide a Slack notification option detailed below. + +*Slack Notification:* We use Slack notifications when the scrapers run into an error. @@ -54,18 +87,20 @@ If you set up elasticsearch locally run it `$ elasticsearch` You can now run the scrapers `$ python scraper.py` (It might take a while) + ### Development In development, instead of scraping entire websites, you can scrape only a small batch to ensure your scrapers are working as expected. Set the `SMALL_BATCH`, `SMALL_BATCH_HF` (for health facilities scrapers), and `SMALL_BATCH_NHIF` (for NHIF scrapers) in the config file that will ensure the scraper doesn't scrape entire sites but just the number of pages that you would like it to scrape defined by this variable. -Use `$ python scraper.py small_batch` to run the scrapers. +Usage `$ python scraper.py --help` + Example `$ python scraper.py --small-batch --scraper doctors clinical_officers ` to run the scrapers. ## Tests Use nosetests to run tests (with stdout) like this: -```$ nosetests --nocapture``` +```$ nosetests --nocapture``` or ```$ nosetests -s``` -_**NB: 60 else '{} seconds'.format(time_taken_in_secs) + self.stat_log = { + 'Scraping took': time_taken, + 'Last successfull Scraping was': strftime("%Y-%m-%d %H:%M:%S", gmtime()), + 'Total documents scraped': len(self.results) + } + log.info("[%s] Scraper completed. %s documents retrieved.", + datetime.now().strftime("%Y-%m-%d %H:%M:%S"), len(self.results)) + + return self.results def scrape_site(self): ''' - Scrape the whole site + This functions scrapes the entire website by calling each page. ''' - print "[{0}] ".format(re.sub(r"(\w)([A-Z])", r"\1 \2", type(self).__name__)) - print "[{0}] Started Scraper.".format(datetime.now().strftime("%Y-%m-%d %H:%M:%S")) + self.set_site_pages_no() - all_results = [] - skipped_pages = 0 + if not self.site_pages_no: + error = { + "ERROR": "scrape_site()", + "SOURCE": self.site_url, + "MESSAGE": "No pages found." + } + self.print_error(error) + return - self.get_total_number_of_pages() - for page_num in range(1, self.num_pages_to_scrape + 1): - url = self.site_url.format(page_num) - try: - self.retries = 0 -<<<<<<< HEAD - nhif = set(re.sub(r"(\w)([A-Z])", r"\1 \2", type(self).__name__).lower().split()) &\ - set(self.NHIF_SERVICES) - if nhif: - scraped_page = self.scrape_page(page_num) - else: - scraped_page = self.scrape_page(url) - if type(scraped_page) != tuple: -======= - scraped_page = self.scrape_page(url) - if scraped_page is None: ->>>>>>> pr/24 - print "There's something wrong with the site. Proceeding to the next scraper." - return + for page_num in range(1, self.site_pages_no + 1): + # Check if is NHIF and if so just use page_num else format site_url + nhif = set(re.sub(r"(\w)([A-Z])", r"\1 \2", type(self).__name__).lower().split()) &\ + set(NHIF_SERVICES) - all_results.extend(scraped_page) - except Exception as err: - skipped_pages += 1 - self.print_error("ERROR - scrape_site() - source: {} page: {} - {}".format(url, page_num, err)) - continue - print "[{0}] - Scraper completed. {1} documents retrieved.".format( - datetime.now().strftime("%Y-%m-%d %H:%M:%S"), len(all_results)/2) # don't count indexing data + url = page_num if nhif else self.site_url.format(page_num) + + results, results_es = self.scrape_page(url, 5) + + if type(results) != list: + error = { + "ERROR": "scrape_site()", + "SOURCE": url, + "MESSAGE": "page: {} \ndata: {}".format(page_num, results) + } + self.print_error(error) + return - if all_results: - all_results_json = json.dumps(all_results) - self.delete_elasticsearch_docs(ES["index"]) - self.upload_data(all_results) - self.archive_data(all_results_json) + self.results.extend(results) + self.results_es.extend(results_es) - print "[{0}] - Completed Scraper.".format(datetime.now().strftime("%Y-%m-%d %H:%M:%S")) + if self.results: + self.archive_data(json.dumps(self.results)) + self.elasticsearch_delete_docs() + self.elasticsearch_index(self.results_es) - return all_results + return self.results - def scrape_page(self, page_url): + def scrape_page(self, page_url, page_retries): ''' - Get entries from page + Scrape the page for the data. ''' try: soup = self.make_soup(page_url) table = soup.find("table", {"class": "zebra"}).find("tbody") rows = table.find_all("tr") - entries = [] + results = [] + results_es = [] for row in rows: # only the columns we want # -1 because fields/columns has extra index; id columns = row.find_all("td")[:len(self.fields) - 1] columns = [text.text.strip() for text in columns] - columns.append(self.document_id) + columns.append(self.doc_id) entry = dict(zip(self.fields, columns)) - meta, entry = self.format_for_elasticsearch(entry) - entries.append(meta) - entries.append(entry) - -<<<<<<< HEAD - delete_batch.append({ - "delete": { - "_index": ES["index"], - "_type": self._type, - "_id": entry["id"] - } - }) -======= ->>>>>>> pr/24 - self.document_id += 1 - return entries + meta, entry = self.elasticsearch_format(entry) + results_es.append(meta) + results_es.append(entry) + results.append(entry) + + self.doc_id += 1 + + return results, results_es + except Exception as err: - if self.retries >= 5: - self.print_error("ERROR - Failed to scrape data from page - {} - {}".format(page_url, str(err))) - return err + if page_retries >= 5: + error = { + "ERROR": "scrape_page()", + "SOURCE": page_url, + "MESSAGE": str(err) + } + self.print_error(error) + return else: - self.retries += 1 - self.scrape_page(page_url) + page_retries += 1 + error = { + "ERROR": "Try {}/5 has failed...".format(page_retries), + "SOURCE": page_url, + "MESSAGE": "{} \nGoing to sleep for {} seconds.".format(err, page_retries * 5) + } + self.print_error(error) - def upload_data(self, payload): + time.sleep(page_retries * 5) + self.scrape_page(page_url, page_retries) + + def set_site_pages_no(self): + ''' + Set the total number of pages to be scraped + ''' + try: + soup = self.make_soup(self.site_url.format(1)) + text = soup.find("div", {"id": "tnt_pagination"}).getText() + # What number of pages looks like + pattern = re.compile("(\d+) pages?") + self.site_pages_no = int(pattern.search(text).group(1)) + except Exception as err: + error = { + "ERROR": "get_total_page_numbers()", + "SOURCE": self.site_url, + "MESSAGE": str(err) + } + self.print_error(error) + + # If small batch is set, that would be the number of pages. + if self.small_batch and self.site_pages_no and self.site_pages_no > SMALL_BATCH: + self.site_pages_no = SMALL_BATCH + + return self.site_pages_no + + # TODO: Print how many pages we found + + def make_soup(self, url): + ''' + Get page, make and return a BeautifulSoup object + ''' + response = requests.get(url) + soup = BeautifulSoup(response.content, "html.parser") + return soup + + def elasticsearch_format(self, entry): + """ + Format entry into elasticsearch ready document + :param entry: the data to be formatted + :return: dictionaries of the entry's metadata and the formatted entry + """ + # all bulk data need meta data describing the data + meta_dict = { + "index": { + "_index": self.es_index, + "_type": self.es_doc, + "_id": entry["id"] + } + } + return meta_dict, entry + + def elasticsearch_index(self, results): ''' Upload data to Elastic Search ''' try: - # bulk index the data and use refresh to ensure that our data will be immediately available - response = self.es_client.bulk(index=ES["index"], body=payload, refresh=True) + # sanity check + if not self.es_client.indices.exists(index=self.es_index): + self.es_client.indices.create(index=self.es_index) + log.info("Elasticsearch: Index successfully created.") + + # bulk index the data and use refresh to ensure that our data will + # be immediately available + response = self.es_client.bulk( + index=self.es_index, body=results, refresh=True) + log.info("Elasticsearch: Index successful.") return response except Exception as err: - self.print_error("ERROR - upload_data() - {} - {}".format(type(self).__name__, str(err))) + error = { + "ERROR": "elasticsearch_index()", + "SOURCE": type(self).__name__, + "MESSAGE": str(err) + } + self.print_error(error) + + def elasticsearch_delete_docs(self): + ''' + Delete documents that were uploaded to elasticsearch in the last scrape + ''' + try: + delete_query = {"query": {"match_all": {}}} + try: + response = self.es_client.delete_by_query( + index=self.es_index, doc_type=self.es_doc, + body=delete_query, _source=True) + return response + except Exception as err: + error = { + "ERROR": "elasticsearch_delete_docs()", + "SOURCE": type(self).__name__, + "MESSAGE": str(err) + } + self.print_error(error) + + except Exception as err: + error = { + "ERROR": "elasticsearch_delete_docs()", + "SOURCE": type(self).__name__, + "MESSAGE": str(err) + } + self.print_error(error) def archive_data(self, payload): ''' @@ -168,202 +334,120 @@ def archive_data(self, payload): ''' try: date = datetime.today().strftime("%Y%m%d") + self.data_key = DATA_DIR + self.data_key + self.data_archive_key = DATA_DIR + self.data_archive_key + if AWS["s3_bucket"]: + # Check if bucket exists and has the expected file structure + self.s3_handler.handle_s3_objects( + bucket_name=AWS["s3_bucket"], key=self.data_key) + old_etag = self.s3.get_object( - Bucket=AWS["s3_bucket"], Key=self.s3_key)["ETag"] + Bucket=AWS["s3_bucket"], Key=self.data_key)["ETag"] new_etag = hashlib.md5(payload.encode("utf-8")).hexdigest() if eval(old_etag) != new_etag: file_obj = StringIO(payload.encode("utf-8")) self.s3.upload_fileobj(file_obj, - AWS["s3_bucket"], self.s3_key) + AWS["s3_bucket"], self.data_key) # archive historical data self.s3.copy_object(Bucket=AWS["s3_bucket"], - CopySource="{}/".format(AWS["s3_bucket"]) + self.s3_key, - Key=self.s3_historical_record_key.format( - date)) - print "[{0}] - Archived data has been updated.".format(datetime.now().strftime("%Y-%m-%d %H:%M:%S")) + CopySource="{}/".format( + AWS["s3_bucket"]) + self.data_key, + Key=self.data_archive_key.format(date)) + log.info("Archive: Data has been updated.") return else: - print "[{0}] - Data Scraped does not differ from archived data.".format( - datetime.now().strftime("%Y-%m-%d %H:%M:%S")) + log.info("Archive: Data scraped does not differ from archived data.") else: - # check if it's test and append the correct path - if "test" in self.s3_key: - self.s3_key = DATA_DIR + self.s3_key # archive to local dir - with open(self.s3_key, "w") as data: + with open(self.data_key, "w") as data: json.dump(payload, data) # archive historical data to local dir - with open(self.s3_historical_record_key.format(date), "w") as history: + with open(self.data_archive_key.format(date), "w") as history: json.dump(payload, history) - print "[{0}] - Archived data has been updated.".format(datetime.now().strftime("%Y-%m-%d %H:%M:%S")) + log.info("Archived: Data has been updated.") except Exception as err: - self.print_error( - "ERROR - archive_data() - {} - {}".format(self.s3_key, str(err))) - - def delete_elasticsearch_docs(self, index): - ''' - Delete documents that were uploaded to elasticsearch in the last scrape - ''' - try: -<<<<<<< HEAD - # get documents to be deleted - if AWS["s3_bucket"]: - delete_docs = self.s3.get_object( - Bucket=AWS["s3_bucket"], - Key=self.delete_file)["Body"].read() - else: - if os.path.exists(self.delete_file): - with open(self.delete_file) as delete: - delete_docs = json.load(delete) - else: - self.print_error("ERROR - delete_elasticsearch_docs() -- no delete file present") - return - # delete - try: - response = self.es_client.bulk(index=ES["index"], body=delete_docs, refresh=True) - except: - # incase records are saved in cloudsearch's format, reformat for elasticsearch deletion - delete_records = [] - for record in json.loads(delete_docs): - try: - delete_records.append({ - "delete": { - "_index": ES["index"], - "_type": self._type, - "_id": record["delete"]["_id"] - } - }) - except: - delete_records.append({ - "delete": { - "_index": ES["index"], - "_type": self._type, - "_id": record["id"] - } - }) - response = self.es_client.bulk(index=ES["index"], body=delete_records) - return response -======= - # get the type to use with the index depending on the calling method - if "clinical" in re.sub(r"(\w)([A-Z])", r"\1 \2", type(self).__name__).lower(): - _type = "clinical-officers" - elif "doctors" in re.sub(r"(\w)([A-Z])", r"\1 \2", type(self).__name__).lower(): - _type = "doctors" - else: - _type = "health-facilities" - # query to delete docs - delete_query = { - "query": { - "match": { - "doctor_type": self.doctor_type - } - } + error = { + "ERROR": "archive_data()", + "SOURCE": self.data_key, + "MESSAGE": str(err) } - if not self.doctor_type: - delete_query['query'] = { "match_all": {}} - - try: - response = self.es_client.delete_by_query(index=index, doc_type=_type, body=delete_query) - return response - except Exception as err: - self.print_error("ERROR - delete_elasticsearch_docs() - {} - {}".format(type(self).__name__, str(err))) - ->>>>>>> pr/24 - except Exception as err: - self.print_error("ERROR - delete_elasticsearch_docs() - {} - {}".format(type(self).__name__, str(err))) + self.print_error(error) - def get_total_number_of_pages(self): + def print_error(self, message): ''' - Get the total number of pages to be scraped + Print error messages in the terminal. + If slack webhook is set up, post the errors to Slack. ''' - try: - # ensure the number of pages set is restrained to 1-10 - if self.small_batch: - self.num_pages_to_scrape = SMALL_BATCH - else: - soup = self.make_soup(self.site_url.format(1)) # get first page - text = soup.find("div", {"id": "tnt_pagination"}).getText() - # what number of pages looks like - pattern = re.compile("(\d+) pages?") - self.num_pages_to_scrape = int(pattern.search(text).group(1)) - except Exception as err: - self.print_error("ERROR - get_total_page_numbers() - url: {} - err: {}".format(self.site_url, str(err))) - return - def make_soup(self, url): - ''' - Get page, make and return a BeautifulSoup object - ''' - response = requests.get(url) # get first page - soup = BeautifulSoup(response.content, "html.parser") - return soup + error = "- ERROR: " + message['ERROR'] + source = ("- SOURCE: " + message['SOURCE']) if "SOURCE" in message else "" + error_msg = "- MESSAGE: " + message['MESSAGE'] + msg = "\n".join([error, source, error_msg]) - def format_for_elasticsearch(self, entry): - """ - Format entry into elasticsearch ready document - :param entry: the data to be formatted - :return: dictionaries of the entry's metadata and the formatted entry - """ - # all bulk data need meta data describing the data - meta_dict = { - "index": { - "_index": ES["index"], - "_type": self._type, - "_id": entry["id"] - } - } - return meta_dict, entry + log.error(msg) - def print_error(self, message): - """ - print error messages in the terminal - if slack webhook is set up, post the errors to slack - """ - print("[{0}] - ".format(datetime.now().strftime("%Y-%m-%d %H:%M:%S")) + message) response = None if SLACK["url"]: - errors = message.split("-", 3) try: - severity = errors[3].split(":")[1] + errors = { + "author": message['ERROR'], + "pretext": message['SOURCE'], + "message": message['MESSAGE'], + } except: - severity = errors[3] + errors = { + "pretext": "", + "author": message, + "message": message, + } + response = requests.post( SLACK["url"], - data=json.dumps( - { - "attachments": - [ + data=json.dumps({ + "attachments": [ + { + "username": "Slack Logger", + "author_name": "{}".format(errors["author"]), + "color": "danger", + "pretext": "[SCRAPER] New Alert for {} : {}".format(errors["author"], errors["pretext"]), + "fields": [ + { + "title": "Message", + "value": "{}".format(errors["message"]), + "short": False + }, + { + "title": "Machine Location", + "value": "{}".format(getpass.getuser()), + "short": True + }, { - "author_name": "{}".format(errors[2]), - "color": "danger", - "pretext": "[SCRAPER] New Alert for{}:{}".format(errors[2], errors[1]), - "fields": [ - { - "title": "Message", - "value": "{}".format(errors[3]), - "short": False - }, - { - "title": "Machine Location", - "value": "{}".format(getpass.getuser()), - "short": True - }, - { - "title": "Time", - "value": "{}".format(datetime.now().strftime("%Y-%m-%d %H:%M:%S")), - "short": True}, - { - "title": "Severity", - "value": "{}".format(severity), - "short": True - } - ] - } - ] - }), - headers={"Content-Type": "application/json"}) + "title": "Time", + "value": "{}".format(datetime.now().strftime("%Y-%m-%d %H:%M:%S")), + "short": True}, + ] + } + ] + }), + headers={"Content-Type": "application/json"} + ) return response + + + def parse_date(self, datetime_string): + ''' + Parse a string into a datetime object + :param datetime_string: the datetime string to parse + :return: datetime object + ''' + from dateutil.parser import parse + try: + dateobject = parse(datetime_string) + return dateobject + except Exception as ex: + log.error('Can not create a the datetime object from {}.'.format(datetime_string)) + return None diff --git a/healthtools/scrapers/clinical_officers.py b/healthtools/scrapers/clinical_officers.py index 91f0976..0c3f04c 100644 --- a/healthtools/scrapers/clinical_officers.py +++ b/healthtools/scrapers/clinical_officers.py @@ -14,30 +14,25 @@ def __init__(self): self.fields = [ "name", "reg_date", "reg_no", "valid_dates", "address", "qualifications", "id", - ] + ] + self.es_doc = "clinical-officers" + self.data_key = "clinical_officers.json" + self.data_archive_key = "archive/clinical_officers-{}.json" - self._type = "clinical-officers" - self.s3_key = "data/clinical_officers.json" - self.s3_historical_record_key = "data/archive/clinical_officers-{}.json" - - def format_for_elasticsearch(self, entry): + def elasticsearch_format(self, entry): """ Format entry into elasticsearch ready document :param entry: the data to be formatted :return: dictionaries of the entry's metadata and the formatted entry """ - try: - date_obj = datetime.strptime(entry["reg_date"], "%Y-%m-%d") - except: - date_obj = datetime.strptime(entry["reg_date"], "%d-%m-%Y") - entry["reg_date"] = datetime.strftime( - date_obj, "%Y-%m-%dT%H:%M:%S.000Z") + date_obj = self.parse_date(entry["reg_date"]) + entry["reg_date"] = datetime.strftime(date_obj, "%Y-%m-%dT%H:%M:%S.000Z") # all bulk data need meta data describing the data meta_dict = { "index": { - "_index": ES["index"], - "_type": self._type, + "_index": self.es_index, + "_type": self.es_doc, "_id": entry["id"] - } } + } return meta_dict, entry diff --git a/healthtools/scrapers/doctors.py b/healthtools/scrapers/doctors.py index e603371..1d64b29 100644 --- a/healthtools/scrapers/doctors.py +++ b/healthtools/scrapers/doctors.py @@ -1,7 +1,7 @@ from healthtools.scrapers.base_scraper import Scraper -from healthtools.config import SITES, ES +from healthtools.config import SITES from datetime import datetime - +import logging class DoctorsScraper(Scraper): ''' @@ -10,16 +10,15 @@ class DoctorsScraper(Scraper): def __init__(self): super(DoctorsScraper, self).__init__() + log = logging.getLogger('__main__') self.site_url = SITES["DOCTORS"] self.fields = [ "name", "reg_date", "reg_no", "postal_address", "qualifications", "speciality", "sub_speciality", "id", ] - - self._type = "doctors" - self.s3_key = "data/doctors.json" - self.s3_historical_record_key = "data/archive/doctors-{}.json" - self.doctor_type = "local_doctor" + self.es_doc = "doctors" + self.data_key = "doctors.json" + self.data_archive_key = "archive/doctors-{}.json" def format_for_elasticsearch(self, entry): """ @@ -38,8 +37,8 @@ def format_for_elasticsearch(self, entry): # all bulk data need meta data describing the data meta_dict = { "index": { - "_index": ES["index"], - "_type": self._type, + "_index": self.es_index, + "_type": self.es_doc, "_id": entry["id"] } } diff --git a/healthtools/scrapers/foreign_doctors.py b/healthtools/scrapers/foreign_doctors.py index b435b9b..0effbd6 100644 --- a/healthtools/scrapers/foreign_doctors.py +++ b/healthtools/scrapers/foreign_doctors.py @@ -1,5 +1,5 @@ from healthtools.scrapers.base_scraper import Scraper -from healthtools.config import SITES, ES +from healthtools.config import SITES class ForeignDoctorsScraper(Scraper): @@ -13,12 +13,10 @@ def __init__(self): self.fields = [ "name", "reg_no", "postal_address", "qualifications", "facility", "practice_type", "id" - ] - - self._type = "doctors" - self.s3_key = "data/foreign_doctors.json" - self.s3_historical_record_key = "data/archive/foreign_doctors-{}.json" - self.doctor_type = "foreign_doctor" + ] + self.es_doc = "doctors" + self.data_key = "foreign_doctors.json" + self.data_archive_key = "archive/foreign_doctors-{}.json" def format_for_elasticsearch(self, entry): """ @@ -33,8 +31,8 @@ def format_for_elasticsearch(self, entry): # all bulk data need meta data describing the data meta_dict = { "index": { - "_index": ES["index"], - "_type": self._type, + "_index": self.es_index, + "_type": self.es_doc, "_id": entry["id"] } } diff --git a/healthtools/scrapers/health_facilities.py b/healthtools/scrapers/health_facilities.py index 38dfd3a..5e227ec 100644 --- a/healthtools/scrapers/health_facilities.py +++ b/healthtools/scrapers/health_facilities.py @@ -1,12 +1,16 @@ import json -from cStringIO import StringIO +import math +import logging +from elasticsearch import Elasticsearch from healthtools.scrapers.base_scraper import Scraper -from healthtools.config import ES, SMALL_BATCH_HF, AWS +from healthtools.config import SMALL_BATCH_HF, ES import requests from datetime import datetime +log = logging.getLogger(__name__) + TOKEN_URL = "http://api.kmhfl.health.go.ke/o/token/" -SEARCH_URL = "http://api.kmhfl.health.go.ke/api/facilities/material/?page_size=100000&" \ +SEARCH_URL = "http://api.kmhfl.health.go.ke/api/facilities/material/?page_size={}&" \ "fields=id,regulatory_status_name,facility_type_name,facility_type_parent,owner_name,owner_type_name," \ "owner_type,operation_status_name,county,constituency,constituency_name,ward_name,average_rating," \ "facility_services,is_approved,has_edits,latest_update,regulatory_body_name,owner,date_requested," \ @@ -24,15 +28,64 @@ class HealthFacilitiesScraper(Scraper): def __init__(self): super(HealthFacilitiesScraper, self).__init__() + self.es_doc = "health-facilities" + self.data_key = "health_facilities.json" + self.data_archive_key = "archive/health_facilities-{}.json" + self.access_token = None - self._type = "health-facilities" - self.s3_key = "data/health_facilities.json" - self.s3_historical_record_key = "data/archive/health_facilities-{}.json" - self.payload = [] - self.count = 0 + + def index_to_es(self, current_result): + current_page_data = [] + page_count = 1 + total_pages = int(math.ceil(len(current_result) / float(10000))) + while page_count <= total_pages: + start_index = (page_count - 1) * 10000 + end_index = start_index + 10000 + current_page_data = current_result[start_index: end_index] + self.elasticsearch_index(current_page_data) + page_count += 1 + + def scrape_site(self): + doc = { + 'size': 10000, + 'query': { + 'match_all': {} + } + } + existing_index_data = self.es_client.search( + index=ES["index"], doc_type=self.es_doc, body=doc, scroll='1m') + try: + self.get_token() + self.get_data() + current_result = self.results_es + if current_result: + self.elasticsearch_delete_docs() + self.index_to_es(current_result) + self.archive_data(json.dumps(current_result)) + + except Exception as err: + existing_index_data = existing_index_data['hits']['hits'] + # add the meta and entry for the existing index + page_data = [] + for hit in existing_index_data: + hit = hit.get('_source') + # reassign a new doc_id, to maintain order like 1, 2,.. + hit["id"] = self.doc_id + meta, entry = self.elasticsearch_format(hit, True) + page_data.append(meta) + page_data.append(entry) + + self.doc_id += 1 + self.index_to_es(page_data) + self.archive_data(json.dumps(page_data)) + error = { + "ERROR": "scrape_site()", + "MESSAGE": str(err) + } + self.print_error(error) + return self.results def get_token(self): - print "[Health Facilities Scraper]" headers = {"Content-Type": "application/x-www-form-urlencoded"} data = { "username": "public@mfltest.slade360.co.ke", @@ -40,76 +93,36 @@ def get_token(self): "grant_type": "password", "client_id": "xMddOofHI0jOKboVxdoKAXWKpkEQAP0TuloGpfj5", "client_secret": "PHrUzCRFm9558DGa6Fh1hEvSCh3C9Lijfq8sbCMZhZqmANYV5ZP04mUXGJdsrZLXuZG4VCmvjShdKHwU6IRmPQld5LDzvJoguEP8AAXGJhrqfLnmtFXU3x2FO1nWLxUx" - } - try: - res = requests.post(TOKEN_URL, data=data, headers=headers) - self.access_token = json.loads(res.text)["access_token"] - except Exception as err: - self.print_error("ERROR IN - get_token() - Health Facilities Scraper - {}".format(str(err))) - - def upload(self, payload): - return self.upload_data(payload) + } + response = requests.post(TOKEN_URL, data=data, headers=headers) + self.access_token = json.loads(response.text)["access_token"] + log.info("Access token received.") def get_data(self): - try: - print "[{0}] - Started Scraper.".format(datetime.now().strftime("%Y-%m-%d %H:%M:%S")) - headers = {"Authorization": "Bearer " + self.access_token} - r = requests.get(SEARCH_URL, headers=headers) - data = r.json() - if self.small_batch: - for i, record in enumerate(data["results"]): - if i < SMALL_BATCH_HF: - meta, elastic_data = self.index_for_elasticsearch(record) - self.payload.append(meta) - self.payload.append(elastic_data) - else: - self.count = i - break - else: - for i, record in enumerate(data["results"]): - meta, elastic_data = self.index_for_elasticsearch(record) - self.payload.append(meta) - self.payload.append(elastic_data) - self.count = i - self.delete_elasticsearch_docs(ES["index"]) # delete elasticsearch data - self.upload(self.payload) # upload data to elasticsearch - print "{{{0}}} - Scraper completed. {1} records retrieved.".format( - datetime.now().strftime("%Y-%m-%d %H:%M:%S"), self.count) - # save the data - self.archive_data(json.dumps(self.payload)) - - print "{{{0}}} - Completed Scraper.".format(datetime.now().strftime("%Y-%m-%d %H:%M:%S")) + url = SEARCH_URL.format(1000000) + if self.small_batch: + url = SEARCH_URL.format(SMALL_BATCH_HF) + headers = {"Authorization": "Bearer " + self.access_token} + r = requests.get(url, headers=headers) + data = r.json() + for entry in data["results"]: + entry["id"] = self.doc_id + meta, entry = self.elasticsearch_format(entry) + self.results_es.append(meta) + self.results_es.append(entry) + self.results.append(entry) - except Exception as err: - self.print_error("ERROR IN - index_for_search() Health Facilities Scraper - {}".format(err)) + self.doc_id += 1 - def index_for_elasticsearch(self, record): - meta_data = {"index": { - "_index": ES["index"], - "_type": self._type, - "_id": record["code"] - }} - health_facilities = { - "id": record["code"], - "name": record["name"].replace("\"", "'"), - "facility_type_name": record["facility_type_name"], - "approved": record["approved"], - "sub_county_name": record["sub_county_name"], - "service_names": record["service_names"], - "county_name": record["county_name"], - "open_public_holidays": record["open_public_holidays"], - "keph_level_name": record["keph_level_name"], - "open_whole_day": record["open_whole_day"], - "owner_name": record["owner_name"], - "constituency_name": record["constituency_name"], - "regulatory_body_name": record["regulatory_body_name"], - "operation_status_name": record["operation_status_name"], - "open_late_night": record["open_late_night"], - "open_weekends": record["open_weekends"], - "ward_name": record["ward_name"].decode("string_escape").replace("\\", "") + def elasticsearch_format(self, entry, isExisting=False): + meta_dict = { + "index": { + "_index": self.es_index, + "_type": self.es_doc, + "_id": self.doc_id } - return meta_data, health_facilities - - def scrape_data(self): - self.get_token() - self.get_data() + } + if not isExisting: + entry["ward_name"] = entry["ward_name"].decode( + "string_escape").replace("\\", "") + return meta_dict, entry diff --git a/healthtools/scrapers/nhif_inpatient.py b/healthtools/scrapers/nhif_inpatient.py index 9abbead..8630865 100644 --- a/healthtools/scrapers/nhif_inpatient.py +++ b/healthtools/scrapers/nhif_inpatient.py @@ -1,30 +1,36 @@ +import time +import logging + from healthtools.scrapers.base_scraper import Scraper -from healthtools.config import SITES, ES, SMALL_BATCH_NHIF +from healthtools.config import SITES, SMALL_BATCH_NHIF +log = logging.getLogger(__name__) class NhifInpatientScraper(Scraper): """Scraper for the NHIF accredited inpatient facilities""" def __init__(self): super(NhifInpatientScraper, self).__init__() - self.site_url = SITES["NHIF-INPATIENT"] + self.site_url = SITES["NHIF_INPATIENT"] self.fields = ["hospital", "postal_addr", "beds", "branch", "category", "id"] - self._type = "nhif-inpatient" - self.s3_key = "data/nhif_inpatient.json" - self.s3_historical_record_key = "data/archive/nhif_inpatient-{}.json" - self.delete_file = "data/delete_nhif_inpatient.json" + self.es_doc = "nhif-inpatient" + self.data_key = "nhif_inpatient.json" + self.data_archive_key = "archive/nhif_inpatient-{}.json" - def scrape_page(self, tab_num): + def scrape_page(self, tab_num, page_retries): """ Get entries from each tab panel - :param tab_num: the + :param tab_num: the tab number + :page_retries: Number of times to retry :return: tuple consisting of entries and records to be deleted """ try: soup = self.make_soup(self.site_url) regions = soup.findAll("a", {"data-toggle": "tab"}) - tabs = [(region["href"].split("#")[1], region.getText()) for region in regions] - entries = [] - delete_batch = [] + tabs = [(region["href"].split("#")[1], str(region.getText())) for region in regions] + + results = [] + results_es = [] + for tab in tabs: table = soup.find("div", {"id": tab[0]}).tbody if self.small_batch: @@ -33,45 +39,53 @@ def scrape_page(self, tab_num): rows = table.find_all("tr") for row in rows: columns = row.find_all("td") - columns = [text.text.strip() for text in columns] - columns.append(self.document_id) + columns = [str(text.get_text()) for text in columns] + columns.append(self.doc_id) entry = dict(zip(self.fields, columns)) - # nairobi region isn't included correctly + + # Nairobi region isn't included correctly if tab[1] == "": entry["region"] = "Nairobi Region" else: entry["region"] = tab[1] - meta, entry = self.format_for_elasticsearch(entry) - entries.append(meta) - entries.append(entry) - delete_batch.append({ - "delete": { - "_index": ES["index"], - "_type": self._type, - "_id": entry["id"] - } - }) - self.document_id += 1 - return entries, delete_batch + meta, entry = self.elasticsearch_format(entry) + results_es.append(meta) + results_es.append(entry) + results.append(entry) + self.doc_id += 1 + return results, results_es except Exception as err: - if self.retries >= 5: - self.print_error("ERROR - Failed to scrape data from tab - {} - {}".format(tab_num, str(err))) + if page_retries >= 5: + error = { + "ERROR": "Failed to scrape data from NHIH Inpatient page.", + "SOURCE": "scrape_page() url: %s" % tab_num, + "MESSAGE": str(err) + } + self.print_error(error) return err else: - self.retries += 1 - self.scrape_page(tab_num) + page_retries += 1 + log.warning("Try %d/5 has failed... \n%s \nGoing to sleep for %d seconds.", + page_retries, err, page_retries*5) + time.sleep(page_retries*5) + self.scrape_page(tab_num, page_retries) - def get_total_number_of_pages(self): + def set_site_pages_no(self): """ Get the total number of pages """ try: soup = self.make_soup(self.site_url) # get number of tabs to scrape - self.num_pages_to_scrape = len( + self.site_pages_no = len( [tag.name for tag in soup.find("div", {"class": "tab-content"}) if tag.name == 'div']) except Exception as err: - self.print_error("ERROR - get_total_page_numbers() - url: {} - err: {}".format(self.site_url, str(err))) + error = { + "ERROR": "NHIF Inpatient: set_site_pages_no()", + "SOURCE": "url: %s" % self.site_url, + "MESSAGE": str(err) + } + self.print_error(error) return diff --git a/healthtools/scrapers/nhif_outpatient.py b/healthtools/scrapers/nhif_outpatient.py index 1c4f140..f8e4551 100644 --- a/healthtools/scrapers/nhif_outpatient.py +++ b/healthtools/scrapers/nhif_outpatient.py @@ -1,28 +1,91 @@ -from healthtools.scrapers.nhif_outpatient_cs import NhifOutpatientCsScraper -from healthtools.config import SITES, ES, SMALL_BATCH_NHIF +import time +import logging +from healthtools.scrapers.base_scraper import Scraper +from healthtools.config import SITES, SMALL_BATCH_NHIF -class NhifOutpatientScraper(NhifOutpatientCsScraper): - """Scraper for the NHIF accredited outpatient facilities""" +log = logging.getLogger(__name__) + +class NhifOutpatientScraper(Scraper): + """ + Scraper for the NHIF accredited outpatient facilities + """ def __init__(self): super(NhifOutpatientScraper, self).__init__() - self.site_url = SITES["NHIF-OUTPATIENT"] + self.site_url = SITES["NHIF_OUTPATIENT"] self.fields = ["code", "hospital", "nhif_branch", "id"] - self._type = "nhif-outpatient" - self.s3_key = "data/nhif_outpatient.json" - self.s3_historical_record_key = "data/archive/nhif_outpatient-{}.json" - self.delete_file = "data/delete_nhif_outpatient.json" + self.es_doc = "nhif-outpatient" + self.data_key = "nhif_outpatient.json" + self.data_archive_key = "archive/nhif_outpatient-{}.json" + + def scrape_page(self, tab_num, page_retries): + """ + Get entries from each tab panel + :param tab_num: the + :return: tuple consisting of entries and records to be deleted + """ + try: + soup = self.make_soup(self.site_url) + # tab numbers start from 4 in the website + data = soup.find("div", {"id": "collapse-{}".format(tab_num + 3)}) + counties = data.find_all('a') + # ignore the last link as it is a reference to the site url + tabs = [(county["href"].split("#")[1], county.getText()) for county in counties[:-1]] + results = [] + results_es = [] + for tab in tabs: + table = data.find('div', {"id": tab[0]}).tbody + + if self.small_batch: + rows = table.find_all("tr")[:SMALL_BATCH_NHIF] + else: + rows = table.find_all("tr") + + for row in rows: + columns = row.find_all("td") + columns = [text.text.strip() for text in columns] + columns.append(self.doc_id) + + entry = dict(zip(self.fields, columns)) + entry["county"] = tab[1] + meta, entry = self.elasticsearch_format(entry) + results_es.append(meta) + results_es.append(entry) + results.append(entry) + + self.doc_id += 1 + return results, results_es + except Exception as err: + if page_retries >= 5: + error = { + "ERROR": "Failed to scrape data from NHIH Outpatient page.", + "SOURCE": "scrape_page() url: %s" % tab_num, + "MESSAGE": str(err) + } + self.print_error(error) + return err + else: + page_retries += 1 + log.warning("Try %d/5 has failed... \n%s \nGoing to sleep for %d seconds.", + page_retries, err, page_retries*5) + time.sleep(page_retries*5) + self.scrape_page(tab_num, page_retries) - def get_total_number_of_pages(self): + def set_site_pages_no(self): """ Get the total number of pages """ try: soup = self.make_soup(self.site_url) # get number of tabs to scrape - self.num_pages_to_scrape = len( + self.site_pages_no = len( [tag.name for tag in soup.find("div", {"id": "collapse-s6"}).find("div", {"id": "accordion"}) if tag.name == 'div']) except Exception as err: - self.print_error("ERROR - get_total_page_numbers() - url: {} - err: {}".format(self.site_url, str(err))) + error = { + "ERROR": "NHIF Outpatient: set_site_pages_no()", + "SOURCE": "url: %s" % self.site_url, + "MESSAGE": str(err) + } + self.print_error(error) return diff --git a/healthtools/scrapers/nhif_outpatient_cs.py b/healthtools/scrapers/nhif_outpatient_cs.py index 2f2700a..9ee3afd 100644 --- a/healthtools/scrapers/nhif_outpatient_cs.py +++ b/healthtools/scrapers/nhif_outpatient_cs.py @@ -1,76 +1,32 @@ -from healthtools.scrapers.base_scraper import Scraper -from healthtools.config import SITES, ES, SMALL_BATCH_NHIF +from healthtools.scrapers.nhif_outpatient import NhifOutpatientScraper +from healthtools.config import SITES -class NhifOutpatientCsScraper(Scraper): +class NhifOutpatientCsScraper(NhifOutpatientScraper): """Scraper for the NHIF outpatient facilities extended to civil servants""" def __init__(self): super(NhifOutpatientCsScraper, self).__init__() - self.site_url = SITES["NHIF-OUTPATIENT_CS"] - self._type = "nhif-outpatient-cs" + self.site_url = SITES["NHIF_OUTPATIENT_CS"] self.fields = ["code", "hospital", "nhif_branch", "job_group", "cover", "id"] - self.s3_key = "data/nhif_outpatient_cs_.json" - self.s3_historical_record_key = "data/archive/nhif_outpatient_cs_-{}.json" - self.delete_file = "data/delete_nhif_outpatient_cs_.json" + self.es_doc = "nhif-outpatient-cs" + self.data_key = "nhif_outpatient_cs.json" + self.data_archive_key = "archive/nhif_outpatient_cs-{}.json" - def scrape_page(self, tab_num): - """ - Get entries from each tab panel - :param tab_num: the - :return: tuple consisting of entries and records to be deleted - """ - try: - soup = self.make_soup(self.site_url) - # tab numbers start from 4 in the website - data = soup.find("div", {"id": "collapse-{}".format(tab_num + 3)}) - counties = data.find_all('a') - # ignore the last link as it is a reference to the site url - tabs = [(county["href"].split("#")[1], county.getText()) for county in counties[:-1]] - entries = [] - delete_batch = [] - for tab in tabs: - table = data.find('div', {"id": tab[0]}).tbody - if self.small_batch: - rows = table.find_all("tr")[:SMALL_BATCH_NHIF] - else: - rows = table.find_all("tr") - for row in rows: - columns = row.find_all("td") - columns = [text.text.strip() for text in columns] - columns.append(self.document_id) - - entry = dict(zip(self.fields, columns)) - entry["county"] = tab[1] - meta, entry = self.format_for_elasticsearch(entry) - entries.append(meta) - entries.append(entry) - - delete_batch.append({ - "delete": { - "_index": ES["index"], - "_type": self._type, - "_id": entry["id"] - } - }) - self.document_id += 1 - return entries, delete_batch - except Exception as err: - if self.retries >= 5: - self.print_error("ERROR - Failed to scrape data from tab - {} - {}".format(tab_num, str(err))) - return err - else: - self.retries += 1 - self.scrape_page(tab_num) - - def get_total_number_of_pages(self): + def set_site_pages_no(self): """ Get the total number of pages """ + self.site_pages_no = 1 try: soup = self.make_soup(self.site_url) # get number of tabs to scrape - self.num_pages_to_scrape = len( + self.site_pages_no = len( [tag.name for tag in soup.find("div", {"id": "accordion"}) if tag.name == 'div']) except Exception as err: - self.print_error("ERROR - get_total_page_numbers() - url: {} - err: {}".format(self.site_url, str(err))) + error = { + "ERROR": "NHIF Outpatient CS: set_site_pages_no()", + "SOURCE": "url: %s" % self.site_url, + "MESSAGE": str(err) + } + self.print_error(error) return diff --git a/healthtools/tests/__init__.py b/healthtools/tests/__init__.py index e69de29..38aa22b 100644 --- a/healthtools/tests/__init__.py +++ b/healthtools/tests/__init__.py @@ -0,0 +1,57 @@ +import os + +from unittest import TestCase + +from healthtools.scrapers.base_scraper import Scraper +from healthtools.scrapers.doctors import DoctorsScraper +from healthtools.scrapers.foreign_doctors import ForeignDoctorsScraper +from healthtools.scrapers.clinical_officers import ClinicalOfficersScraper +from healthtools.scrapers.health_facilities import HealthFacilitiesScraper +from healthtools.scrapers.nhif_inpatient import NhifInpatientScraper +from healthtools.scrapers.nhif_outpatient import NhifOutpatientScraper +from healthtools.scrapers.nhif_outpatient_cs import NhifOutpatientCsScraper + + +class BaseTest(TestCase): + """ + Base class for scraper unittests + """ + def setUp(self): + # get test data directory + self.TEST_DIR = os.path.dirname(os.path.abspath(__file__)) + "/" + + # set up test scrapers + self.base_scraper = Scraper() + self.doctors_scraper = DoctorsScraper() + self.foreign_doctors_scraper = ForeignDoctorsScraper() + self.clinical_officers_scraper = ClinicalOfficersScraper() + self.health_facilities_scraper = HealthFacilitiesScraper() + self.nhif_inpatient_scraper = NhifInpatientScraper() + self.nhif_outpatient_scraper = NhifOutpatientScraper() + self.nhif_outpatient_cs_scraper = NhifOutpatientCsScraper() + + # set up test indices + index = "healthtools-test" + self.doctors_scraper.es_index = index + self.foreign_doctors_scraper.es_index = index + self.clinical_officers_scraper.es_index = index + self.health_facilities_scraper.es_index = index + self.nhif_inpatient_scraper.es_index = index + self.nhif_outpatient_scraper.es_index = index + self.nhif_outpatient_cs_scraper.es_index = index + + # set up tests data keys and archive keys + self.doctors_scraper.data_key = "test/" + self.doctors_scraper.data_key + self.doctors_scraper.data_archive_key = "test/" + self.doctors_scraper.data_archive_key + self.foreign_doctors_scraper.data_key = "test/" + self.foreign_doctors_scraper.data_key + self.foreign_doctors_scraper.data_archive_key = "test/" + self.foreign_doctors_scraper.data_archive_key + self.clinical_officers_scraper.data_key = "test/" + self.clinical_officers_scraper.data_key + self.clinical_officers_scraper.data_archive_key = "test/" + self.clinical_officers_scraper.data_archive_key + self.health_facilities_scraper.data_key = "test/" + self.health_facilities_scraper.data_key + self.health_facilities_scraper.data_archive_key = "test/" + self.health_facilities_scraper.data_archive_key + self.nhif_inpatient_scraper.data_key = "test/" + self.nhif_inpatient_scraper.data_key + self.nhif_inpatient_scraper.data_archive_key = "test/" + self.nhif_inpatient_scraper.data_archive_key + self.nhif_outpatient_scraper.data_key = "test/" + self.nhif_outpatient_scraper.data_key + self.nhif_outpatient_scraper.data_archive_key = "test/" + self.nhif_outpatient_scraper.data_archive_key + self.nhif_outpatient_cs_scraper.data_key = "test/" + self.nhif_outpatient_cs_scraper.data_key + self.nhif_outpatient_cs_scraper.data_archive_key = "test/" + self.nhif_outpatient_cs_scraper.data_archive_key diff --git a/healthtools/tests/dummy_files/clinical_officers.json b/healthtools/tests/dummy_files/clinical_officers.json index b316910..88079c1 100644 --- a/healthtools/tests/dummy_files/clinical_officers.json +++ b/healthtools/tests/dummy_files/clinical_officers.json @@ -1 +1 @@ -[{"index": {"_type": "clinical-officers", "_id": 0, "_index": "healthtools"}}, {"name": "JACOB KILIMO KISANG", "reg_no": "1 / Ra00302/17", "valid_dates": "2017-01-23 / 2019-01-31", "qalifications": "DIP", "reg_date": "1989-01-05T00:00:00.000Z", "address": "PO BOX 1881", "id": 0}, {"index": {"_type": "clinical-officers", "_id": 1, "_index": "healthtools"}}, {"name": "ISAAC NNDA NYABAYO", "reg_no": "2 / Ra02803/17", "valid_dates": "2017-05-31 / 2019-05-31", "qalifications": "DIP", "reg_date": "2011-04-28T00:00:00.000Z", "address": "P.O BOX 456 KISII", "id": 1}, {"index": {"_type": "clinical-officers", "_id": 2, "_index": "healthtools"}}, {"name": "FRANCIS KINGE MATHERI", "reg_no": "18 / Ra01477/16", "valid_dates": "2016-03-30 / 2018-03-31", "qalifications": "DIP", "reg_date": "1989-07-08T00:00:00.000Z", "address": "P.O BOX 656 KIAMB", "id": 2}, {"index": {"_type": "clinical-officers", "_id": 3, "_index": "healthtools"}}, {"name": "GLADYS OKAKAH KOYENGO", "reg_no": "19 / Ra00811/15", "valid_dates": "2015-11-18 / 2017-11-30", "qalifications": "DIP", "reg_date": "1989-04-26T00:00:00.000Z", "address": "P.O BOX 20715 NAIROBI", "id": 3}, {"index": {"_type": "clinical-officers", "_id": 4, "_index": "healthtools"}}, {"name": "STEPHEN OKEYO ABEBE", "reg_no": "20 / R02062/16", "valid_dates": "2016-08-18 / 2018-08-31", "qalifications": "DIP", "reg_date": "1989-03-16T00:00:00.000Z", "address": "P.O. BOX 1 KADONGO", "id": 4}, {"index": {"_type": "clinical-officers", "_id": 5, "_index": "healthtools"}}, {"name": "DANIEL ONGWENYI MOGAMBI", "reg_no": "22 / R01412/17", "valid_dates": "2017-05-09 / 2019-05-31", "qalifications": "DIP", "reg_date": "1989-01-11T00:00:00.000Z", "address": "P.O BOX 4315 ELDORET", "id": 5}, {"index": {"_type": "clinical-officers", "_id": 6, "_index": "healthtools"}}, {"name": "JOSEPH OGEKA MAORE", "reg_no": "30 / Ra01287/16", "valid_dates": "2016-03-14 / 2018-03-31", "qalifications": "DIP", "reg_date": "1989-01-05T00:00:00.000Z", "address": "P.O BOX 153 KISII", "id": 6}, {"index": {"_type": "clinical-officers", "_id": 7, "_index": "healthtools"}}, {"name": "HAMISI ALI FAJIN", "reg_no": "37 / Ra01032/15", "valid_dates": "2015-12-08 / 2017-12-31", "qalifications": "DIP", "reg_date": "1989-01-10T00:00:00.000Z", "address": "P.O BOX 57 MALINDI", "id": 7}, {"index": {"_type": "clinical-officers", "_id": 8, "_index": "healthtools"}}, {"name": "GEORGE AYIEKO JOWI", "reg_no": "40 / Ra01823/16", "valid_dates": "2016-05-12 / 2018-05-31", "qalifications": "DIP", "reg_date": "1989-01-05T00:00:00.000Z", "address": "P.O. BOX 538 MTWAPA", "id": 8}, {"index": {"_type": "clinical-officers", "_id": 9, "_index": "healthtools"}}, {"name": "STEPHEN KIPLAGAT KITTR", "reg_no": "48 / Ra02696/17", "valid_dates": "2017-05-23 / 2019-05-31", "qalifications": "DIP", "reg_date": "1987-08-25T00:00:00.000Z", "address": "P.O BOX 5036 ELDORET", "id": 9}, {"index": {"_type": "clinical-officers", "_id": 10, "_index": "healthtools"}}, {"name": "ROBERT MNGE KIMND", "reg_no": "54 / Ra02229/17", "valid_dates": "2017-05-01 / 2019-05-31", "qalifications": "DIP", "reg_date": "1988-02-02T00:00:00.000Z", "address": "P.O BOX 304 MACHAKOS", "id": 10}, {"index": {"_type": "clinical-officers", "_id": 11, "_index": "healthtools"}}, {"name": "CHRISANTHS MAKORI ORINA", "reg_no": "55 / Ra00375/15", "valid_dates": "2015-09-29 / 2017-09-30", "qalifications": "DIP", "reg_date": "1988-01-28T00:00:00.000Z", "address": "P.O. BOX 3685 KISII", "id": 11}, {"index": {"_type": "clinical-officers", "_id": 12, "_index": "healthtools"}}, {"name": "EZEKIEL WALF WALF", "reg_no": "76 / Ra02666/17", "valid_dates": "2017-05-19 / 2019-05-31", "qalifications": "DIP", "reg_date": "1987-03-19T00:00:00.000Z", "address": "P.O BOX 802 MMIAS", "id": 12}, {"index": {"_type": "clinical-officers", "_id": 13, "_index": "healthtools"}}, {"name": "ELIKANAH KEBAGENDI OMWENGA", "reg_no": "78 / Ra00147/15", "valid_dates": "2015-09-01 / 2017-09-30", "qalifications": "DIP", "reg_date": "1989-08-16T00:00:00.000Z", "address": "P.O BOX 252 80100 MOMBASA", "id": 13}, {"index": {"_type": "clinical-officers", "_id": 14, "_index": "healthtools"}}, {"name": "EVANS NGK HEZRON", "reg_no": "87 / Ra02613/17", "valid_dates": "2017-05-16 / 2019-05-31", "qalifications": "DIP", "reg_date": "1989-01-11T00:00:00.000Z", "address": "P.O. BOX 14907 NAKR", "id": 14}, {"index": {"_type": "clinical-officers", "_id": 15, "_index": "healthtools"}}, {"name": "DANIEL OMBACHI MOGENI", "reg_no": "97 / Ra00643/16", "valid_dates": "2016-02-03 / 2018-02-28", "qalifications": "DIP", "reg_date": "1988-01-28T00:00:00.000Z", "address": "P.O. BOX 235 NYAMIRA", "id": 15}, {"index": {"_type": "clinical-officers", "_id": 16, "_index": "healthtools"}}, {"name": "BENSON GICHHI NG'ERI", "reg_no": "107 / Ra00293/15", "valid_dates": "2015-09-15 / 2017-09-30", "qalifications": "DIP", "reg_date": "1989-01-11T00:00:00.000Z", "address": "P.O. BOX 15383 NAKR", "id": 16}, {"index": {"_type": "clinical-officers", "_id": 17, "_index": "healthtools"}}, {"name": "ANDIVA HERMAN KAGHALI", "reg_no": "112 / Ra00758/16", "valid_dates": "2016-02-09 / 2018-02-28", "qalifications": "DIP", "reg_date": "1989-05-12T00:00:00.000Z", "address": "P.O. BOX 119 50309 TIRIKI", "id": 17}, {"index": {"_type": "clinical-officers", "_id": 18, "_index": "healthtools"}}, {"name": "DABASO GARAMBODA JILLO", "reg_no": "121 / Ra00245/17", "valid_dates": "2017-01-19 / 2019-01-31", "qalifications": "DIP", "reg_date": "1989-01-17T00:00:00.000Z", "address": "P.O BOX 753 GARISSA", "id": 18}, {"index": {"_type": "clinical-officers", "_id": 19, "_index": "healthtools"}}, {"name": "SIYAD MOHAMED OMAR", "reg_no": "122 / Ra02079/16", "valid_dates": "2016-06-15 / 2018-06-30", "qalifications": "DIP", "reg_date": "1989-01-06T00:00:00.000Z", "address": "P.O BOX 253 GARISSA", "id": 19}, {"index": {"_type": "clinical-officers", "_id": 20, "_index": "healthtools"}}, {"name": "DAVID MAINA NJR", "reg_no": "125 / Ra02390/16", "valid_dates": "2016-07-19 / 2018-07-31", "qalifications": "DIP", "reg_date": "1989-10-12T00:00:00.000Z", "address": "P.O BOX 20435 00200 NAIROBI", "id": 20}, {"index": {"_type": "clinical-officers", "_id": 21, "_index": "healthtools"}}, {"name": "ALLEN PETERSON MBELA", "reg_no": "138 / Ra00187/16", "valid_dates": "2016-01-13 / 2018-01-31", "qalifications": "DIP", "reg_date": "1989-01-17T00:00:00.000Z", "address": "P.O. BOX 47 MWATATE", "id": 21}, {"index": {"_type": "clinical-officers", "_id": 22, "_index": "healthtools"}}, {"name": "LINCOLN MRAI NJGNA", "reg_no": "139 / Ra00572/15", "valid_dates": "2015-11-01 / 2017-11-30", "qalifications": "DIP", "reg_date": "1988-02-12T00:00:00.000Z", "address": "P.O BOX 125 KILGORIS", "id": 22}, {"index": {"_type": "clinical-officers", "_id": 23, "_index": "healthtools"}}, {"name": "KITHSI PETER KIITI", "reg_no": "141 / Ra01441/16", "valid_dates": "2016-03-24 / 2018-03-31", "qalifications": "DIP", "reg_date": "1989-02-21T00:00:00.000Z", "address": "P.O BOX 1473 KANGNDO", "id": 23}, {"index": {"_type": "clinical-officers", "_id": 24, "_index": "healthtools"}}, {"name": "MICHAEL GITARI KAMA", "reg_no": "147 / R03501/15", "valid_dates": "2015-07-16 / 2017-07-31", "qalifications": "DIP", "reg_date": "1989-01-20T00:00:00.000Z", "address": "P.O BOX 701 THIKA", "id": 24}, {"index": {"_type": "clinical-officers", "_id": 25, "_index": "healthtools"}}, {"name": "JSTS MEME MGWIKA", "reg_no": "152 / Ra02087/17", "valid_dates": "2017-03-31 / 2019-03-31", "qalifications": "DIP", "reg_date": "1989-01-22T00:00:00.000Z", "address": "P.O. BOX 1681 MER", "id": 25}, {"index": {"_type": "clinical-officers", "_id": 26, "_index": "healthtools"}}, {"name": "JAMES NYORO WAMWEA", "reg_no": "163 / Ra01474/16", "valid_dates": "2016-03-29 / 2018-03-31", "qalifications": "DIP", "reg_date": "1955-03-15T00:00:00.000Z", "address": "P.O BOX 265 LIMR", "id": 26}, {"index": {"_type": "clinical-officers", "_id": 27, "_index": "healthtools"}}, {"name": "GITHAIGA NJMA ONESMS", "reg_no": "168 / Ra01203/16", "valid_dates": "2016-03-08 / 2018-03-31", "qalifications": "DIP", "reg_date": "1989-01-25T00:00:00.000Z", "address": "P.O. BOX 171 MKRWEINI", "id": 27}, {"index": {"_type": "clinical-officers", "_id": 28, "_index": "healthtools"}}, {"name": "JSTS KARIG KIBARA", "reg_no": "171 / Ra01199/16", "valid_dates": "2016-03-08 / 2018-03-31", "qalifications": "DIP", "reg_date": "2001-01-31T00:00:00.000Z", "address": "P.O. BOX 2 GIAKANJA", "id": 28}, {"index": {"_type": "clinical-officers", "_id": 29, "_index": "healthtools"}}, {"name": "KILLIAN ANSELM MWOLOI", "reg_no": "178 / Ra00200/16", "valid_dates": "2016-01-13 / 2018-01-31", "qalifications": "DIP", "reg_date": "1989-02-21T00:00:00.000Z", "address": "P.O. 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{"index": {"_type": "nhif-outpatient-cs", "_id": 70, "_index": "healthtools-test"}}, {"code": "0018438", "hospital": "ADVENT MED & DENT CARE CENTRE", "cover": "Outpatient", "id": 70, "county": "Nakuru", "job_group": "A-K", "nhif_branch": "NAKURU"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 71, "_index": "healthtools-test"}}, {"code": "0019264", "hospital": "AFRAHA MATERNITY & NURSING HOME", "cover": "Inpatient & Outpatient", "id": 71, "county": "Nakuru", "job_group": "A-K", "nhif_branch": "NAKURU"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 72, "_index": "healthtools-test"}}, {"code": "00192206", "hospital": "AFRICARE LIMITED NAKURU", "cover": "Outpatient", "id": 72, "county": "Nakuru", "job_group": "A-K, L-T", "nhif_branch": "NAKURU"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 73, "_index": "healthtools-test"}}, {"code": "0018277", "hospital": "AIC KIJABE HOSPITAL NAIVASHA MED. 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"cover": "Outpatient", "id": 77, "county": "Nakuru", "job_group": "A-K", "nhif_branch": "NAKURU"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 78, "_index": "healthtools-test"}}, {"code": "0019703", "hospital": "BARAKA MATERNITY NURSING HOME", "cover": "Inpatient & Outpatient", "id": 78, "county": "Nakuru", "job_group": "A-K", "nhif_branch": "NAKURU"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 79, "_index": "healthtools-test"}}, {"code": "0019278", "hospital": "BETHANIA MEDICAL CENTRE", "cover": "Inpatient & Outpatient", "id": 79, "county": "Nakuru", "job_group": "A-K", "nhif_branch": "NAKURU"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 80, "_index": "healthtools-test"}}, {"code": "3337650", "hospital": "AKEMO VALLEY MATERNITY & NURSING HOME", "cover": "Inpatient & Outpatient", "id": 80, "county": "Narok", "job_group": "A-K", "nhif_branch": "NAROK"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 81, "_index": "healthtools-test"}}, {"code": "00031825", "hospital": "ANGATABARRIKOI HEALTH CENTRE", "cover": "Outpatient", "id": 81, "county": "Narok", "job_group": "A-K", "nhif_branch": "KILGORIS"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 82, "_index": "healthtools-test"}}, {"code": "00031921", "hospital": "EMARTI HEALTH CENTRE", "cover": "Outpatient", "id": 82, "county": "Narok", "job_group": "A-K", "nhif_branch": "KILGORIS"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 83, "_index": "healthtools-test"}}, {"code": "00031768", "hospital": "EMURUA DIKIRR HEALTH CENTRE", "cover": "Outpatient", "id": 83, "county": "Narok", "job_group": "A-K", "nhif_branch": "KILGORIS"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 84, "_index": "healthtools-test"}}, {"code": "00131160", "hospital": "ENAIBELBEL HEALTH CARE", "cover": "Outpatient", "id": 84, "county": "Narok", "job_group": "A-K", "nhif_branch": "NAROK"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 85, "_index": "healthtools-test"}}, {"code": "00031341", "hospital": "ENOOSAEN HEALTH 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"county": "Narok", "job_group": "A-K", "nhif_branch": "NAROK"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 90, "_index": "healthtools-test"}}, {"code": "00131156", "hospital": "APEX MEDICAL SERVICES", "cover": "Outpatient", "id": 90, "county": "Nandi", "job_group": "A-K", "nhif_branch": "NANDI HILLS"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 91, "_index": "healthtools-test"}}, {"code": "0013212", "hospital": "BARATON JEREMIC COMMUNITY MEDICAL CENTRE", "cover": "Inpatient & Outpatient (L-T)", "id": 91, "county": "Nandi", "job_group": "A-K, L-T", "nhif_branch": "KAPSABET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 92, "_index": "healthtools-test"}}, {"code": "00131157", "hospital": "BETHESDA MEDICAL CLINIC", "cover": "Outpatient", "id": 92, "county": "Nandi", "job_group": "A-K", "nhif_branch": "KAPSABET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 93, "_index": "healthtools-test"}}, {"code": "00131275", "hospital": "CHEMASE HEALTH CENTRE", "cover": "Inpatient & Outpatient", "id": 93, "county": "Nandi", "job_group": "A-K", "nhif_branch": "KAPSABET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 94, "_index": "healthtools-test"}}, {"code": "00131671", "hospital": "CHEMUDU DISPENSARY", "cover": "Outpatient", "id": 94, "county": "Nandi", "job_group": "A-K", "nhif_branch": "KAPSABET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 95, "_index": "healthtools-test"}}, {"code": "00131676", "hospital": "CHEPKEMEL HEALTH CENTRE", "cover": "Outpatient", "id": 95, "county": "Nandi", "job_group": "A-K", "nhif_branch": "KAPSABET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 96, "_index": "healthtools-test"}}, {"code": "00132196", "hospital": "CHEPSO MEDICAL CENTRE", "cover": "Outpatient", "id": 96, "county": "Nandi", "job_group": "A-K", "nhif_branch": "KAPSABET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 97, "_index": "healthtools-test"}}, {"code": "00131769", "hospital": "CHEPTABACH DISPENSARY", "cover": "Outpatient", "id": 97, "county": "Nandi", "job_group": "A-K", "nhif_branch": "NANDI HILLS"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 98, "_index": "healthtools-test"}}, {"code": "00131154", "hospital": "CHEPTERWAI SUB-DISTRICT HOSPITAL", "cover": "Outpatient", "id": 98, "county": "Nandi", "job_group": "A-K", "nhif_branch": "KAPSABET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 99, "_index": "healthtools-test"}}, {"code": "00131836", "hospital": "CHEPTINGWICH HEALTH CENTRE", "cover": "Outpatient", "id": 99, "county": "Nandi", "job_group": "A-K", "nhif_branch": "KAPSABET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 100, "_index": "healthtools-test"}}, {"code": "0016054", "hospital": "ANDERSON MEDICAL CENTRE", "cover": "Inpatient & Outpatient", "id": 100, "county": "Trans Nzoia", "job_group": "A-K, L-T", "nhif_branch": "KITALE"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 101, "_index": "healthtools-test"}}, {"code": "00161457", "hospital": "BIKEKE HEALTH CENTRE", "cover": "Outpatient", "id": 101, "county": "Trans Nzoia", "job_group": "A-K", "nhif_branch": "KITALE"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 102, "_index": "healthtools-test"}}, {"code": "0016624", "hospital": "CHERANGANY NURSING HOME", "cover": "Outpatient", "id": 102, "county": "Trans Nzoia", "job_group": "L-T", "nhif_branch": "KITALE"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 103, "_index": "healthtools-test"}}, {"code": "00162066", "hospital": "CHESINENDE DISPENSARY", "cover": "Outpatient", "id": 103, "county": "Trans Nzoia", "job_group": "A-K", "nhif_branch": "KITALE"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 104, "_index": "healthtools-test"}}, {"code": "00161728", "hospital": "CRYSTAL COTTAGE HOSPITAL AND MEDICAL CLINIC", "cover": "Inpatient & Outpatient", "id": 104, "county": "Trans Nzoia", "job_group": "A-K", "nhif_branch": "KITALE"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 105, "_index": "healthtools-test"}}, {"code": "0016582", "hospital": "EBENEZER MEDICAL CLINIC", "cover": "Outpatient", "id": 105, "county": "Trans Nzoia", "job_group": "A-K", "nhif_branch": "KITALE"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 106, "_index": "healthtools-test"}}, {"code": "0016956", "hospital": "ENDEBESS SUB-DISTRICT HOSPITAL", "cover": "Inpatient & Outpatient", "id": 106, "county": "Trans Nzoia", "job_group": "A-K", "nhif_branch": "KITALE"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 107, "_index": "healthtools-test"}}, {"code": "00161986", "hospital": "GITWAMBA HEALTH CENTRE", "cover": "Outpatient", "id": 107, "county": "Trans Nzoia", "job_group": "A-K", "nhif_branch": "KITALE"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 108, "_index": "healthtools-test"}}, {"code": "00162061", "hospital": "KABOYWO HEALTH CENTRE", "cover": "Outpatient", "id": 108, "county": "Trans Nzoia", "job_group": "A-K", "nhif_branch": "KITALE"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 109, "_index": "healthtools-test"}}, {"code": "00161474", "hospital": "KAPSARA DISTRICT HOSPITAL", "cover": "Inpatient & Outpatient", "id": 109, "county": "Trans Nzoia", "job_group": "A-K", "nhif_branch": "KITALE"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 110, "_index": "healthtools-test"}}, {"code": "00101680", "hospital": "AIC KALOKOL HEALTH CENTRE", "cover": "Outpatient", "id": 110, "county": "Turkana ", "job_group": "A-K", "nhif_branch": "LODWAR"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 111, "_index": "healthtools-test"}}, {"code": "0017987", "hospital": "AIC LOKICHOGIO HEALTH CENTRE", "cover": "Inpatient & Outpatient", "id": 111, "county": "Turkana ", "job_group": "A-K", "nhif_branch": "LODWAR"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 112, "_index": "healthtools-test"}}, {"code": "00161659", "hospital": "GK PRISONS DISPENSARY", "cover": "Outpatient", "id": 112, "county": "Turkana ", "job_group": "A-K", "nhif_branch": "LODWAR"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 113, "_index": "healthtools-test"}}, {"code": "00161748", "hospital": "KAINUK HEALTH CENTRE", "cover": "Outpatient", "id": 113, "county": "Turkana ", "job_group": "A-K", "nhif_branch": "LODWAR"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 114, "_index": "healthtools-test"}}, {"code": "0017851", "hospital": "KAKUMA MISSION HOSPITAL", "cover": "Inpatient & Outpatient", "id": 114, "county": "Turkana ", "job_group": "A-K, L-T", "nhif_branch": "LODWAR"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 115, "_index": "healthtools-test"}}, {"code": "0010098", "hospital": "LODWAR DISTRICT", "cover": "Inpatient & Outpatient", "id": 115, "county": "Turkana ", "job_group": "A-K, L-T", "nhif_branch": "LODWAR"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 116, "_index": "healthtools-test"}}, {"code": "0010207", "hospital": "LOKITANG HOSPITAL LODWAR", "cover": "Inpatient & Outpatient", "id": 116, "county": "Turkana ", "job_group": "A-K", "nhif_branch": "LODWAR"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 117, "_index": "healthtools-test"}}, {"code": "0016905", "hospital": "LOPIDING DISTRICT HOSPITAL", "cover": "Inpatient & Outpatient", "id": 117, "county": "Turkana ", "job_group": "A-K", "nhif_branch": "LODWAR"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 118, "_index": "healthtools-test"}}, {"code": "00161645", "hospital": "MAKUTANO HEALTH CENTRE", "cover": "Outpatient", "id": 118, "county": "Turkana ", "job_group": "A-K", "nhif_branch": "LODWAR"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 119, "_index": "healthtools-test"}}, {"code": "00171619", "hospital": "BURNT FOREST SUB-DISTRICT HOSPITAL", "cover": "Inpatient & Outpatient", "id": 119, "county": "Uasin Gishu", "job_group": "A-K", "nhif_branch": "ELDORET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 120, "_index": "healthtools-test"}}, {"code": "0017481", "hospital": "CEDAR CLINICAL ASSOCIATES", "cover": "Outpatient", "id": 120, "county": "Uasin Gishu", "job_group": "A-K", "nhif_branch": "ELDORET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 121, "_index": "healthtools-test"}}, {"code": "00171752", "hospital": "CHEMBULET HEALTH CENTRE", "cover": "Outpatient", "id": 121, "county": "Uasin Gishu", "job_group": "A-K", "nhif_branch": "ELDORET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 122, "_index": "healthtools-test"}}, {"code": "00171856", "hospital": "CHEPKANGA HEALTH CENTRE", "cover": "Outpatient", "id": 122, "county": "Uasin Gishu", "job_group": "A-K", "nhif_branch": "ELDORET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 123, "_index": "healthtools-test"}}, {"code": "00171819", "hospital": "CHEPKIGEN HEALTH CENTRE", "cover": "Outpatient", "id": 123, "county": "Uasin Gishu", "job_group": "A-K", "nhif_branch": "ELDORET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 124, "_index": "healthtools-test"}}, {"code": "0017728", "hospital": "ELGON VIEW HOSPITAL", "cover": "Outpatient", "id": 124, "county": "Uasin Gishu", "job_group": "L-T", "nhif_branch": "ELDORET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 125, "_index": "healthtools-test"}}, {"code": "0017645", "hospital": "HURUMA DISTRICT HOSPITAL", "cover": "Outpatient", "id": 125, "county": "Uasin Gishu", "job_group": "A-K", "nhif_branch": "ELDORET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 126, "_index": "healthtools-test"}}, {"code": "00171684", "hospital": "KAPTARAKWA SUB-DISTRICT HOSPITAL", "cover": "Inpatient", "id": 126, "county": "Uasin Gishu", "job_group": "A-K", "nhif_branch": "ELDORET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 127, "_index": "healthtools-test"}}, {"code": "00171857", "hospital": "KESSES HEALTH CENTRE", "cover": "Outpatient", "id": 127, "county": "Uasin Gishu", "job_group": "A-K", "nhif_branch": "ELDORET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 128, "_index": "healthtools-test"}}, {"code": "00171777", "hospital": "KIMUMU HEALTH CENTRE", "cover": "Outpatient", "id": 128, "county": "Uasin Gishu", "job_group": "A-K", "nhif_branch": "ELDORET"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 129, "_index": "healthtools-test"}}, {"code": "00122465", "hospital": "ALALE HEALTH CENTRE", "cover": "Outpatient", "id": 129, "county": "West Pokot", "job_group": "A-K", "nhif_branch": "KAPENGURIA"}, {"index": {"_type": "nhif-outpatient-cs", "_id": 130, "_index": "healthtools-test"}}, {"code": "00121451", "hospital": "CHEPARERIA SUB DISTRICT HOSPITAL", "cover": "Inpatient & Outpatient", "id": 130, "county": "West Pokot", "job_group": "A-K", "nhif_branch": "KAPENGURIA"}] diff --git a/healthtools/tests/test_scrapers.py b/healthtools/tests/test_scrapers.py index 8bc4e5a..4f9e6f7 100644 --- a/healthtools/tests/test_scrapers.py +++ b/healthtools/tests/test_scrapers.py @@ -1,168 +1,232 @@ -import unittest +import boto3 import json -from healthtools.scrapers.base_scraper import Scraper -from healthtools.scrapers.doctors import DoctorsScraper -from healthtools.scrapers.foreign_doctors import ForeignDoctorsScraper -from healthtools.scrapers.clinical_officers import ClinicalOfficersScraper -from healthtools.scrapers.health_facilities import HealthFacilitiesScraper -from healthtools.scrapers.nhif_inpatient import NhifInpatientScraper -from healthtools.scrapers.nhif_outpatient import NhifOutpatientScraper -from healthtools.scrapers.nhif_outpatient_cs import NhifOutpatientCsScraper -from healthtools.config import TEST_DIR, SLACK, AWS - - -class TestScrapers(unittest.TestCase): - def setUp(self): - self.base_scraper = Scraper() - self.doctors_scraper = DoctorsScraper() - self.foreign_doctors_scraper = ForeignDoctorsScraper() - self.clinical_officers_scraper = ClinicalOfficersScraper() - self.health_facilities_scraper = HealthFacilitiesScraper() - self.nhif_inpatient_scraper = NhifInpatientScraper() - self.nhif_outpatient_scraper = NhifOutpatientScraper() - self.nhif_outpatient_cs_scraper = NhifOutpatientCsScraper() +import os +from healthtools.tests import BaseTest +from healthtools.config import SLACK, AWS, DATA_DIR + + +class TestScrapers(BaseTest): + """ + Unit Tests for Scraper + """ def test_it_gets_the_total_number_of_pages(self): - self.doctors_scraper.get_total_number_of_pages() - self.assertIsNotNone(self.doctors_scraper.num_pages_to_scrape) + pages = self.doctors_scraper.set_site_pages_no() + self.assertIsNotNone(pages) def test_it_scrapes_doctors_page(self): entries = self.doctors_scraper.scrape_page( - "http://medicalboard.co.ke/online-services/retention/?currpage=1") - self.assertTrue(len(entries) == 60) + "http://medicalboard.co.ke/online-services/retention/?currpage=1", 5) + self.assertTrue(len(entries[1]) == 60) def test_it_scrapes_foreign_doctors_page(self): entries = self.foreign_doctors_scraper.scrape_page( - "http://medicalboard.co.ke/online-services/foreign-doctors-license-register/?currpage=1") - self.assertTrue(len(entries) == 60) + "http://medicalboard.co.ke/online-services/foreign-doctors-license-register/?currpage=1", 5) + self.assertTrue(len(entries[1]) == 60) def test_it_scrapes_clinical_officers_page(self): entries = self.clinical_officers_scraper.scrape_page( - "http://clinicalofficerscouncil.org/online-services/retention/?currpage=1") - self.assertTrue(len(entries) == 60) + "http://clinicalofficerscouncil.org/online-services/retention/?currpage=1", 5) + self.assertTrue(len(entries[1]) == 60) def test_it_scrapes_nhif_inpatient_page(self): - entries = self.nhif_inpatient_scraper.scrape_page(1) + entries = self.nhif_inpatient_scraper.scrape_page(1, 5) self.assertTrue(len(entries) > 1) def test_it_scrapes_nhif_outpatient_page(self): - entries = self.nhif_outpatient_scraper.scrape_page(1) + entries = self.nhif_outpatient_scraper.scrape_page(1, 5) self.assertTrue(len(entries) > 1) def test_it_scrapes_nhif_outpatient_cs_page(self): - entries = self.nhif_outpatient_cs_scraper.scrape_page(1) + entries = self.nhif_outpatient_cs_scraper.scrape_page(1, 5) self.assertTrue(len(entries) > 1) def test_doctors_scraper_uploads_to_elasticsearch(self): - with open(TEST_DIR + "/dummy_files/doctors.json", "r") as my_file: + with open(self.TEST_DIR + "dummy_files/doctors.json", "r") as my_file: data = my_file.read() - response = self.doctors_scraper.upload_data(json.loads(data)) - self.assertEqual(response["items"][0]["index"]["_shards"]["successful"], 1) + response = self.doctors_scraper.elasticsearch_index(json.loads(data)) + self.assertEqual(len(response["items"]), len(json.loads(data))/2) def test_foreign_doctors_scraper_uploads_to_elasticsearch(self): - with open(TEST_DIR + "/dummy_files/foreign_doctors.json", "r") as my_file: + with open(self.TEST_DIR + "dummy_files/foreign_doctors.json", "r") as my_file: data = my_file.read() - response = self.foreign_doctors_scraper.upload_data(json.loads(data)) - self.assertEqual(response["items"][0]["index"]["_shards"]["successful"], 1) + response = self.foreign_doctors_scraper.elasticsearch_index(json.loads(data)) + self.assertEqual(len(response["items"]), len(json.loads(data))/2) def test_clinical_officers_scraper_uploads_to_elasticsearch(self): - with open(TEST_DIR + "/dummy_files/clinical_officers.json", "r") as my_file: + with open(self.TEST_DIR + "dummy_files/clinical_officers.json", "r") as my_file: data = my_file.read() - response = self.clinical_officers_scraper.upload_data(json.loads(data)) - self.assertEqual(response["items"][0]["index"]["_shards"]["successful"], 1) + response = self.clinical_officers_scraper.elasticsearch_index(json.loads(data)) + self.assertEqual(len(response["items"]), len(json.loads(data))/2) def test_health_facilities_scraper_uploads_to_elasticsearch(self): - with open(TEST_DIR + "/dummy_files/health_facilities.json", "r") as my_file: + with open(self.TEST_DIR + "dummy_files/health_facilities.json", "r") as my_file: data = my_file.read() - response = self.health_facilities_scraper.upload(json.loads(data)) - self.assertEqual(response["items"][0]["index"]["_shards"]["successful"], 1) + response = self.health_facilities_scraper.elasticsearch_index(json.loads(data)) + self.assertEqual(len(response["items"]), len(json.loads(data))/2) def test_nhif_inpatient_scraper_uploads_to_elasticsearch(self): - with open(TEST_DIR + "/dummy_files/nhif_inpatient.json", "r") as my_file: + with open(self.TEST_DIR + "dummy_files/nhif_inpatient.json", "r") as my_file: data = my_file.read() - response = self.nhif_inpatient_scraper.upload_data(json.loads(data)) - self.assertEqual(response["items"][0]["index"]["_shards"]["successful"], 1) + response = self.nhif_inpatient_scraper.elasticsearch_index(json.loads(data)) + self.assertEqual(len(response["items"]), len(json.loads(data))/2) def test_nhif_outpatient_scraper_uploads_to_elasticsearch(self): - with open(TEST_DIR + "/dummy_files/nhif_outpatient.json", "r") as my_file: + with open(self.TEST_DIR + "dummy_files/nhif_outpatient.json", "r") as my_file: data = my_file.read() - response = self.nhif_outpatient_scraper.upload_data(json.loads(data)) - self.assertEqual(response["items"][0]["index"]["_shards"]["successful"], 1) + response = self.nhif_outpatient_scraper.elasticsearch_index(json.loads(data)) + self.assertEqual(len(response["items"]), len(json.loads(data))/2) def test_nhif_outpatient_cs_scraper_uploads_to_elasticsearch(self): - with open(TEST_DIR + "/dummy_files/nhif_outpatient_cs.json", "r") as my_file: + with open(self.TEST_DIR + "dummy_files/nhif_outpatient_cs.json", "r") as my_file: data = my_file.read() - response = self.nhif_outpatient_cs_scraper.upload_data(json.loads(data)) - self.assertEqual(response["items"][0]["index"]["_shards"]["successful"], 1) + response = self.nhif_outpatient_cs_scraper.elasticsearch_index(json.loads(data)) + self.assertEqual(len(response["items"]), len(json.loads(data))/2) def test_doctors_scraper_archives_to_s3(self): - self.doctors_scraper.s3_key = "test/doctors.json" - with open(TEST_DIR + "/dummy_files/doctors.json", "r") as my_file: + with open(self.TEST_DIR + "dummy_files/doctors.json", "r") as my_file: data = my_file.read() self.doctors_scraper.archive_data(data) uploaded_data = self.doctors_scraper.s3.get_object( Bucket=AWS["s3_bucket"], - Key=self.doctors_scraper.s3_key - )["Body"].read() if AWS["s3_bucket"] else json.load(open(self.doctors_scraper.s3_key)) + Key=self.doctors_scraper.data_key + )["Body"].read() if AWS["s3_bucket"] else json.load(open(self.doctors_scraper.data_key)) self.assertEqual(uploaded_data, data) def test_foreign_doctors_scraper_archives_to_s3(self): - self.foreign_doctors_scraper.s3_key = "test/foreign_doctors.json" - with open(TEST_DIR + "/dummy_files/foreign_doctors.json", "r") as my_file: + with open(self.TEST_DIR + "dummy_files/foreign_doctors.json", "r") as my_file: data = my_file.read() self.foreign_doctors_scraper.archive_data(data) uploaded_data = self.foreign_doctors_scraper.s3.get_object( Bucket=AWS["s3_bucket"], - Key=self.foreign_doctors_scraper.s3_key - )["Body"].read() if AWS["s3_bucket"] else json.load(open(self.foreign_doctors_scraper.s3_key)) + Key=self.foreign_doctors_scraper.data_key + )["Body"].read() if AWS["s3_bucket"] else json.load(open(self.foreign_doctors_scraper.data_key)) self.assertEqual(uploaded_data, data) def test_clinical_officers_scraper_archives_to_s3(self): - self.clinical_officers_scraper.s3_key = "test/clinical_officers.json" - with open(TEST_DIR + "/dummy_files/clinical_officers.json", "r") as my_file: + with open(self.TEST_DIR + "dummy_files/clinical_officers.json", "r") as my_file: data = my_file.read() self.clinical_officers_scraper.archive_data(data) uploaded_data = self.clinical_officers_scraper.s3.get_object( Bucket=AWS["s3_bucket"], - Key=self.clinical_officers_scraper.s3_key - )["Body"].read() if AWS["s3_bucket"] else json.load(open(self.clinical_officers_scraper.s3_key)) + Key=self.clinical_officers_scraper.data_key + )["Body"].read() if AWS["s3_bucket"] else json.load(open(self.clinical_officers_scraper.data_key)) + self.assertEqual(uploaded_data, data) + + def test_health_facilities_scraper_archives_to_s3(self): + with open(self.TEST_DIR + "dummy_files/doctors.json", "r") as my_file: + data = my_file.read() + self.health_facilities_scraper.archive_data(data) + uploaded_data = self.health_facilities_scraper.s3.get_object( + Bucket=AWS["s3_bucket"], + Key=self.health_facilities_scraper.data_key + )["Body"].read() if AWS["s3_bucket"] else json.load(open(self.health_facilities_scraper.data_key)) + self.assertEqual(uploaded_data, data) + + def test_nhif_inpatient_archives_to_s3(self): + with open(self.TEST_DIR + "dummy_files/doctors.json", "r") as my_file: + data = my_file.read() + self.nhif_inpatient_scraper.archive_data(data) + uploaded_data = self.nhif_inpatient_scraper.s3.get_object( + Bucket=AWS["s3_bucket"], + Key=self.nhif_inpatient_scraper.data_key + )["Body"].read() if AWS["s3_bucket"] else json.load(open(self.nhif_inpatient_scraper.data_key)) + self.assertEqual(uploaded_data, data) + + def test_nhif_outpatient_archives_to_s3(self): + with open(self.TEST_DIR + "dummy_files/doctors.json", "r") as my_file: + data = my_file.read() + self.nhif_outpatient_scraper.archive_data(data) + uploaded_data = self.nhif_outpatient_scraper.s3.get_object( + Bucket=AWS["s3_bucket"], + Key=self.nhif_outpatient_scraper.data_key + )["Body"].read() if AWS["s3_bucket"] else json.load(open(self.nhif_outpatient_scraper.data_key)) + self.assertEqual(uploaded_data, data) + + def test_nhif_outpatient_cs_archives_to_s3(self): + with open(self.TEST_DIR + "dummy_files/doctors.json", "r") as my_file: + data = my_file.read() + self.nhif_outpatient_cs_scraper.archive_data(data) + uploaded_data = self.nhif_outpatient_cs_scraper.s3.get_object( + Bucket=AWS["s3_bucket"], + Key=self.nhif_outpatient_cs_scraper.data_key + )["Body"].read() if AWS["s3_bucket"] else json.load(open(self.nhif_outpatient_cs_scraper.data_key)) self.assertEqual(uploaded_data, data) def test_health_facilities_scraper_gets_token(self): self.health_facilities_scraper.get_token() self.assertIsNotNone(self.health_facilities_scraper.access_token) - def test_scrapper_prints_notification_on_error(self): - response = self.base_scraper.print_error("Testing Error - Error - Tests - Error posted:Error occurred") + def test_scraper_prints_notification_on_error(self): + error = { + "ERROR": "test error", + "SOURCE": "Test Error Posting", + "MESSAGE": "Error occurred" + } + response = self.base_scraper.print_error(error) if SLACK["url"]: self.assertEqual(response.status_code, 200) else: self.assertIsNone(response) def test_delete_doctors_documents_from_elasticsearch(self): - with open(TEST_DIR + "/dummy_files/doctors.json", "r") as my_file: + self.doctors_scraper.elasticsearch_delete_docs() # make sure doc_type is empty + with open(self.TEST_DIR + "dummy_files/doctors.json", "r") as my_file: data = my_file.read() - upload_response = self.doctors_scraper.upload_data(json.loads(data)) - delete_response = self.doctors_scraper.delete_elasticsearch_docs('healthtools') + upload_response = self.doctors_scraper.elasticsearch_index(json.loads(data)) + delete_response = self.doctors_scraper.elasticsearch_delete_docs() self.assertEqual(len(upload_response["items"]), delete_response["deleted"]) def test_delete_foreign_doctors_documents_from_elasticsearch(self): - with open(TEST_DIR + "/dummy_files/foreign_doctors.json", "r") as my_file: + with open(self.TEST_DIR + "dummy_files/foreign_doctors.json", "r") as my_file: data = my_file.read() - upload_response = self.foreign_doctors_scraper.upload_data(json.loads(data)) - delete_response = self.foreign_doctors_scraper.delete_elasticsearch_docs('healthtools') + upload_response = self.foreign_doctors_scraper.elasticsearch_index(json.loads(data)) + delete_response = self.foreign_doctors_scraper.elasticsearch_delete_docs() self.assertEqual(len(upload_response["items"]), delete_response["deleted"]) def test_delete_clinical_officers_documents_from_elasticsearch(self): - with open(TEST_DIR + "/dummy_files/clinical_officers.json", "r") as my_file: + with open(self.TEST_DIR + "dummy_files/clinical_officers.json", "r") as my_file: data = my_file.read() - upload_response = self.clinical_officers_scraper.upload_data(json.loads(data)) - delete_response = self.clinical_officers_scraper.delete_elasticsearch_docs('healthtools') + upload_response = self.clinical_officers_scraper.elasticsearch_index(json.loads(data)) + delete_response = self.clinical_officers_scraper.elasticsearch_delete_docs() self.assertEqual(len(upload_response["items"]), delete_response["deleted"]) def test_delete_health_facilities_documents_from_elasticsearch(self): - with open(TEST_DIR + "/dummy_files/health_facilities.json", "r") as my_file: + with open(self.TEST_DIR + "dummy_files/health_facilities.json", "r") as my_file: + data = my_file.read() + upload_response = self.health_facilities_scraper.elasticsearch_index(json.loads(data)) + delete_response = self.health_facilities_scraper.elasticsearch_delete_docs() + self.assertEqual(len(upload_response["items"]), delete_response["deleted"]) + + def test_delete_nhif_inpatient_documents_from_elasticsearch(self): + with open(self.TEST_DIR + "dummy_files/nhif_inpatient.json", "r") as my_file: + data = my_file.read() + upload_response = self.nhif_inpatient_scraper.elasticsearch_index(json.loads(data)) + delete_response = self.nhif_inpatient_scraper.elasticsearch_delete_docs() + self.assertEqual(len(upload_response["items"]), delete_response["deleted"]) + + def test_delete_nhif_outpatient_documents_from_elasticsearch(self): + with open(self.TEST_DIR + "dummy_files/nhif_outpatient.json", "r") as my_file: data = my_file.read() - upload_response = self.health_facilities_scraper.upload(json.loads(data)) - delete_response = self.health_facilities_scraper.delete_elasticsearch_docs('healthtools') + upload_response = self.nhif_outpatient_scraper.elasticsearch_index(json.loads(data)) + delete_response = self.nhif_outpatient_scraper.elasticsearch_delete_docs() self.assertEqual(len(upload_response["items"]), delete_response["deleted"]) + + def test_delete_nhif_outpatient_cs_documents_from_elasticsearch(self): + with open(self.TEST_DIR + "dummy_files/nhif_outpatient_cs.json", "r") as my_file: + data = my_file.read() + upload_response = self.nhif_outpatient_cs_scraper.elasticsearch_index(json.loads(data)) + delete_response = self.nhif_outpatient_cs_scraper.elasticsearch_delete_docs() + self.assertEqual(len(upload_response["items"]), delete_response["deleted"]) + + def test_local_data_directory_or_s3_bucket_provided_exists(self): + if AWS["s3_bucket"]: + s3 = boto3.resource("s3", **{ + "aws_access_key_id": AWS["aws_access_key_id"], + "aws_secret_access_key": AWS["aws_secret_access_key"], + "region_name": AWS["region_name"] + }) + bucket = s3.meta.client.head_bucket(Bucket=AWS["s3_bucket"]) + self.assertEqual(bucket["ResponseMetadata"]["HTTPStatusCode"], 200) + else: + self.assertTrue(os.path.exists(DATA_DIR)) diff --git a/requirements.txt b/requirements.txt index 3815d45..116acbf 100644 --- a/requirements.txt +++ b/requirements.txt @@ -7,6 +7,7 @@ bs4==0.0.1 certifi==2017.4.17 click==6.7 docutils==0.13.1 +dumptruck==0.1.6 elasticsearch==5.4.0 Flask==0.12.1 futures==3.0.5 @@ -19,11 +20,16 @@ nose==1.3.7 packaging==16.8 pyparsing==2.2.0 python-dateutil==2.6.0 -python-memcached==1.58 +python3-memcached== 1.51 requests==2.13.0 requests-aws4auth==0.9 s3transfer==0.1.10 +-e git+http://github.com/openaustralia/scraperwiki-python.git@732dda1982a3b2073f6341a6a24f9df1bda77fa0#egg=scraperwiki six==1.10.0 +slack-logger==0.2.0 slackclient==1.0.6 +slacker==0.9.42 +termcolor==1.1.0 urllib3==1.21.1 websocket-client==0.40.0 +Werkzeug==0.12.2 diff --git a/runtime.txt b/runtime.txt index c47075b..cfa5aa5 100644 --- a/runtime.txt +++ b/runtime.txt @@ -1 +1 @@ -python-2.7.9 +python-3.6.2 diff --git a/scraper.py b/scraper.py index e8b8b03..e8c0fc6 100644 --- a/scraper.py +++ b/scraper.py @@ -1,29 +1,143 @@ +import json +from time import time, gmtime, strftime +import logging +import logging.config +<<<<<<< HEAD +import random +import os +======= +>>>>>>> b3697af9fbc641598bd5d6fb79d6721231095e36 + from healthtools.scrapers.doctors import DoctorsScraper +from healthtools.scrapers.base_scraper import Scraper from healthtools.scrapers.foreign_doctors import ForeignDoctorsScraper from healthtools.scrapers.clinical_officers import ClinicalOfficersScraper from healthtools.scrapers.health_facilities import HealthFacilitiesScraper from healthtools.scrapers.nhif_inpatient import NhifInpatientScraper from healthtools.scrapers.nhif_outpatient import NhifOutpatientScraper from healthtools.scrapers.nhif_outpatient_cs import NhifOutpatientCsScraper +from healthtools.config import LOGGING -if __name__ == "__main__": +log = logging.getLogger(__name__) + +def setup_logging(default_level=logging.INFO): + """ + Setup logging configuration + """ + try: + logging.config.dictConfig(LOGGING) + except Exception as ex: + logging.basicConfig(level=default_level) + + SLACK_URL = os.getenv("MORPH_WEBHOOK_URL", None) + if SLACK_URL: + from slack_logger import SlackHandler, SlackFormatter + log.setLevel(logging.WARNING) + try: + sh = SlackHandler(username='Scraper Logger', url=SLACK_URL) + sh.setLevel(logging.WARNING) + + f = SlackFormatter() + sh.setFormatter(f) + log.addHandler(sh) + except Exception as ex: + log.error('Unable to add slack_logger', str(ex)) + +# create a random Id for this scrap instance +scraper_id = random.randint(1, 100000) + +def scrapers(): + ''' + Function to run every scraper + ''' + # record the start time + start_time = time() # Initialize the Scrapers doctors_scraper = DoctorsScraper() foreign_doctors_scraper = ForeignDoctorsScraper() clinical_officers_scraper = ClinicalOfficersScraper() healthfacilities_scraper = HealthFacilitiesScraper() + nhif_inpatient_scraper = NhifInpatientScraper() nhif_outpatient_scraper = NhifOutpatientScraper() nhif_outpatient_cs_scraper = NhifOutpatientCsScraper() - # scraping you softly with these bots... - doctors_result = doctors_scraper.scrape_site() + # Run the scrapers + + ''' + Doctors Scraper + --------------- + Doctors are a combination of local and foreign doctors. If the local + doctors' scraper fails, we shouldn't scrape the foreign doctors. + ''' + start_execution = time() + + doctors_result = doctors_scraper.run_scraper() if doctors_result: - foreign_doctors_scraper.document_id = len(doctors_result)/ 2 - foreign_docs_result = foreign_doctors_scraper.scrape_site() - clinical_officers_result = clinical_officers_scraper.scrape_site() - healthfacilities_result = healthfacilities_scraper.scrape_data() - nhif_inpatient_result = nhif_inpatient_scraper.scrape_site() - nhif_outpatient_result = nhif_outpatient_scraper.scrape_site() - nhif_outpatient_cs_result = nhif_outpatient_cs_scraper.scrape_site() + foreign_doctors_scraper.doc_id = len(doctors_result) + foreign_docs_result = foreign_doctors_scraper.run_scraper() + + ''' + Clinical Officers Scraper + ------------------------- + Scrapes the clinical officers website. + ''' + clinical_officers_result = clinical_officers_scraper.run_scraper() + + ''' + Health Facilities Scraper + ------------------------- + Scrapes the government's Kenya Health Facilities Master List. + ''' + healthfacilities_result = healthfacilities_scraper.run_scraper() + + ''' + NHIF Scraper + ------------------------- + Scrapes the NHIF website for accredited hospital / facitilities. + ''' + nhif_inpatient_result = nhif_inpatient_scraper.run_scraper() + nhif_outpatient_result = nhif_outpatient_scraper.run_scraper() + nhif_outpatient_cs_result = nhif_outpatient_cs_scraper.run_scraper() + + total_runtime = time() - start_execution + m, s = divmod(total_runtime, 60) + h, m = divmod(m, 60) + time_taken = "%dhr:%02dmin:%02dsec" % ( + h, m, s) if total_runtime > 60 else '{} seconds'.format(total_runtime) + + scraping_statistics = { + 'Total time Scraping took': time_taken, + 'Last successfull Scrape was': strftime("%Y-%m-%d %H:%M:%S", gmtime()), + 'doctors_scraper': doctors_scraper.stat_log, + 'foreign_doctors_scraper': foreign_doctors_scraper.stat_log, + 'clinical_officers_scraper': clinical_officers_scraper.stat_log, + 'healthfacilities_scraper': healthfacilities_scraper.stat_log, + 'nhif_inpatient_scraper': nhif_inpatient_scraper.stat_log, + 'nhif_outpatient_cs_scraper': nhif_outpatient_cs_scraper.stat_log, + 'nhif_outpatient_scraper': nhif_outpatient_scraper.stat_log, + } + + # initialize a scraper to index scraper statistics + scraper_stats = Scraper() + scraper_stats.data_key = "stats.json" + scraper_stats.data_archive_key = "stats/stats-{}.json" + scraper_stats.archive_data(json.dumps(scraping_statistics)) + + # log warning when scraper ran more than 30 minutes + if(m >= 30): + log.warning('Scraper: {} ran for about {}'.format(scraper_id, time_taken)) + +if __name__ == "__main__": + setup_logging() + import multiprocessing + # Start the scrapers + scraping = multiprocessing.Process(target=scrapers) + scraping.start() + scraping.join(30 * 60) + + # log error if scraping is still running after 30 minutes + if scraping.is_alive(): + log.warning('Scraper: {} is running for more than 30 minutes'.format(scraper_id)) + From dfbceab516bdbe20cab34529b204b0f17a6805be Mon Sep 17 00:00:00 2001 From: andela_ookoro Date: Wed, 22 Nov 2017 16:45:28 +0100 Subject: [PATCH 2/2] pull c4a develop --- requirements.txt | 1 + scraper.py | 3 --- 2 files changed, 1 insertion(+), 3 deletions(-) diff --git a/requirements.txt b/requirements.txt index 116acbf..9000c89 100644 --- a/requirements.txt +++ b/requirements.txt @@ -29,6 +29,7 @@ six==1.10.0 slack-logger==0.2.0 slackclient==1.0.6 slacker==0.9.42 +slacker-log-handler==1.6.1 termcolor==1.1.0 urllib3==1.21.1 websocket-client==0.40.0 diff --git a/scraper.py b/scraper.py index e8c0fc6..9d5c7a9 100644 --- a/scraper.py +++ b/scraper.py @@ -2,11 +2,8 @@ from time import time, gmtime, strftime import logging import logging.config -<<<<<<< HEAD import random import os -======= ->>>>>>> b3697af9fbc641598bd5d6fb79d6721231095e36 from healthtools.scrapers.doctors import DoctorsScraper from healthtools.scrapers.base_scraper import Scraper