def index(request: HttpRequest, voucher_code: str, gene_code: str) -> HttpResponse: """Runs a local blast for voucher code and gene code Show results to user in a table """ blast = BLAST('local', voucher_code, gene_code) blast.save_seqs_to_file() if not blast.is_blast_db_up_to_date(): try: blast.create_blast_db() except CalledProcessError: log.warning("there are no sequences for gene %s", gene_code) was_sequence_saved = blast.save_query_to_file() if was_sequence_saved: blast.do_blast() result = blast.parse_blast_output() blast.delete_query_output_files() else: result = { "error": "Query sequence has no valid codons, only question marks", } context = get_context(request) context["result"] = result return render(request, 'blast_local/index.html', context)
def results(request): context = get_context(request) if request.method == 'POST': log.debug(request.POST) form = BLASTNewForm(request.POST) if form.is_valid(): cleaned_data = form.cleaned_data blast = BLASTNew( blast_type='new', name=cleaned_data['name'], sequence=cleaned_data['sequence'], gene_codes=cleaned_data['gene_codes'], ) blast.save_seqs_to_file() if not blast.is_blast_db_up_to_date(): blast.create_blast_db() blast.save_query_to_file() blast.do_blast() result = blast.parse_blast_output() if not result: result = None blast.delete_query_output_files() context["result"] = result return render(request, 'blast_new/results.html', context) else: context["form"] = form return render(request, 'blast_new/index.html', context) return HttpResponseRedirect('/blast_new/')
def index(request: HttpRequest, voucher_code: str, gene_code: str) -> HttpResponse: """Runs a local blast for voucher code and gene code Show results to user in a table """ blast = BLAST('local', voucher_code, gene_code) blast.save_seqs_to_file() if not blast.is_blast_db_up_to_date(): try: blast.create_blast_db() except CalledProcessError: log.warning("there are no sequences for gene %s", gene_code) was_sequence_saved = blast.save_query_to_file() if was_sequence_saved: blast.do_blast() result = blast.parse_blast_output() blast.delete_query_output_files() else: result = { "error": "Query sequence has no valid codons, only question marks", } context = get_context(request) context["result"] = result return render(request, 'blast_local/index.html', context)
def show_voucher(request, voucher_code): context = get_context(request) try: voucher_queryset = Vouchers.objects.get(code__iexact=voucher_code) except Vouchers.DoesNotExist: raise Http404 flickr_images_queryset = FlickrImages.objects.filter(voucher=voucher_code) local_images_queryset = LocalImages.objects.filter(voucher=voucher_code) images_queryset = list(chain(flickr_images_queryset, local_images_queryset)) seqs_queryset = Sequences.objects.filter(code=voucher_code).values( 'code', 'gene_code', 'number_ambiguous_bp', 'accession', 'lab_person', 'total_number_bp', ) sorted_seqs_queryset = sorted(seqs_queryset, key=lambda x: x['gene_code'].lower()) context['voucher'] = voucher_queryset context['images'] = images_queryset context['sequences'] = sorted_seqs_queryset context['google_maps_api_key'] = settings.GOOGLE_MAPS_API_KEY return render(request, 'public_interface/show_voucher.html', context)
def results(request, dataset_id): context = get_context(request) try: dataset = Dataset.objects.get(id=dataset_id) except Dataset.DoesNotExist: raise Http404(f'such dataset {dataset_id} does not exist') if dataset.sister_dataset_id: aa_dataset = dataset try: nucleotide_dataset = Dataset.objects.get( id=aa_dataset.sister_dataset_id) except Dataset.DoesNotExist: raise Http404(f'such dataset {dataset_id} does not exist') else: nucleotide_dataset = dataset aa_dataset = None if aa_dataset: context['aa_dataset'] = aa_dataset context['nucleotide_dataset'] = nucleotide_dataset return render(request, 'create_dataset/results_bankit.html', context) else: context['dataset'] = nucleotide_dataset return render(request, 'create_dataset/results.html', context)
def results(request): context = get_context(request) if request.method == 'POST': log.debug(request.POST) form = BLASTNewForm(request.POST) if form.is_valid(): cleaned_data = form.cleaned_data blast = BLASTNew( blast_type='new', name=cleaned_data['name'], sequence=cleaned_data['sequence'], gene_codes=cleaned_data['gene_codes'], ) blast.save_seqs_to_file() if not blast.is_blast_db_up_to_date(): blast.create_blast_db() blast.save_query_to_file() blast.do_blast() result = blast.parse_blast_output() if not result: result = None blast.delete_query_output_files() context["result"] = result return render(request, 'blast_new/results.html', context) else: context["form"] = form return render(request, 'blast_new/index.html', context) return HttpResponseRedirect('/blast_new/')
def show_voucher(request, voucher_code): context = get_context(request) try: voucher_queryset = Vouchers.objects.get(code__iexact=voucher_code) except Vouchers.DoesNotExist: raise Http404 flickr_images_queryset = FlickrImages.objects.filter(voucher=voucher_code) local_images_queryset = LocalImages.objects.filter(voucher=voucher_code) images_queryset = list(chain(flickr_images_queryset, local_images_queryset)) seqs_queryset = Sequences.objects.filter(code=voucher_code).values( 'code', 'gene_code', 'number_ambiguous_bp', 'accession', 'lab_person', 'total_number_bp', ) sorted_seqs_queryset = sorted(seqs_queryset, key=lambda x: x['gene_code'].lower()) context['voucher'] = voucher_queryset context['images'] = images_queryset context['sequences'] = sorted_seqs_queryset context['google_maps_api_key'] = settings.GOOGLE_MAPS_API_KEY return render(request, 'public_interface/show_voucher.html', context)
def search(request): """Simple search tool""" context = get_context(request) context['simple_query'] = get_simple_query(request) if 'q' not in request.GET: return redirect('/') query = request.GET['q'].strip() if query == '': return redirect('/') form = SearchForm(request.GET) page = request.GET.get('page') if settings.ELASTICSEARCH is True: sqs = form.search() sqs.spelling_suggestion() results = "" paginator = "" if sqs: paginator = Paginator(sqs, 25) try: results = paginator.page(page) except PageNotAnInteger: # If page is not an integer, deliver first page. results = paginator.page(1) except EmptyPage: # If page is out of range (e.g. 9999), deliver last page of results. results = paginator.page(paginator.num_pages) context['page'] = results context['paginator'] = paginator context['results'] = results context['voucher_code_list'] = get_voucher_code_list(sqs) context['url_encoded_query'] = get_correct_url_query( request.GET.urlencode()) context['result_count'] = len(sqs) return render(request, 'public_interface/search_results.html', context) else: sqs = Vouchers.objects.filter( Q(orden__icontains=query) | Q(genus__icontains=query) | Q(species__icontains=query) | Q(code__icontains=query), ) results = "" paginator = "" if sqs: paginator = Paginator(sqs, 25) try: results = paginator.page(page) except PageNotAnInteger: # If page is not an integer, deliver first page. results = paginator.page(1) except EmptyPage: # If page is out of range (e.g. 9999), deliver last page of results. results = paginator.page(paginator.num_pages) context["result_count"] = sqs.count() context['page'] = results context['paginator'] = paginator context['results'] = results return render(request, 'public_interface/search_results.html', context)
def results(request): context = get_context(request) if request.method == 'POST': form = GeneTableForm(request.POST) if form.is_valid(): table = GeneTable(form.cleaned_data) response = create_excel_file(table.stats) return response context["form"] = GeneTableForm() return render(request, 'gene_table/index.html', context)
def results(request): context = get_context(request) if request.method == 'POST': form = GeneTableForm(request.POST) if form.is_valid(): table = GeneTable(form.cleaned_data) response = create_excel_file(table.stats) return response context["form"] = GeneTableForm() return render(request, 'gene_table/index.html', context)
def index(request: HttpRequest, voucher_code: str, gene_code: str) -> HttpResponse: """Executes blast of sequence against NCBI genbank""" blast = BLASTNcbi(blast_type="remote", voucher_code=voucher_code, gene_code=gene_code) blast.save_query_to_file() blast.do_blast() result = blast.parse_blast_output() blast.delete_query_output_files() context = get_context(request) context["result"] = result return render(request, 'blast_local/index.html', context)
def index(request: HttpRequest, voucher_code: str, gene_code: str) -> HttpResponse: """Executes blast of sequence against NCBI genbank""" blast = BLASTNcbi(blast_type="remote", voucher_code=voucher_code, gene_code=gene_code) blast.save_query_to_file() blast.do_blast() result = blast.parse_blast_output() blast.delete_query_output_files() context = get_context(request) context["result"] = result return render(request, 'blast_local/index.html', context)
def results(request): context = get_context(request) if request.method == 'POST': form = GenBankFastaForm(request.POST) if form.is_valid(): cleaned_data = form.cleaned_data cleaned_data['file_format'] = 'GenBankFASTA' cleaned_data['number_genes'] = '' cleaned_data['translations'] = False cleaned_data['aminoacids'] = False cleaned_data['positions'] = 'ALL' cleaned_data['partition_by_positions'] = 'by gene' cleaned_data['taxon_names'] = ['CODE', 'GENUS', 'SPECIES'] cleaned_data['outgroup'] = '' dataset_creator = CreateDataset(cleaned_data) dataset = dataset_creator.dataset_str dataset_short = dataset[ 0: 1500] + '\n...\n\n\n' + '#######\nComplete dataset file available for download.\n#######' # noqa errors = dataset_creator.errors warnings = dataset_creator.warnings dataset_file_abs = dataset_creator.dataset_file items_with_accession = dataset_creator.sequences_skipped if dataset_file_abs is not None: dataset_file = os.path.basename(dataset_file_abs) else: dataset_file = False cleaned_data['aminoacids'] = True dataset_creator = CreateDataset(cleaned_data) aa_dataset = dataset_creator.dataset_str aa_dataset_file_abs = dataset_creator.dataset_file if aa_dataset_file_abs is not None: aa_dataset_file = os.path.basename(aa_dataset_file_abs) else: aa_dataset_file = False context['items_with_accession'] = items_with_accession context['dataset'] = dataset_short context['fasta_file'] = dataset_file context['protein'] = aa_dataset context['errors'] = errors context['protein_file'] = aa_dataset_file context['warnings'] = warnings return render(request, 'genbank_fasta/results.html', context) else: context["form"] = form return render(request, 'genbank_fasta/index.html', context) return HttpResponseRedirect('/genbank_fasta/')
def results(request): context = get_context(request) if request.method == 'POST': form = VoucherTableForm(request.POST) if form.is_valid(): table = VoucherTable(form.cleaned_data) response = table.create_csv_file() return response else: context["form"] = form return render(request, 'voucher_table/index.html', context) return HttpResponseRedirect('/create_voucher_table/')
def results(request): context = get_context(request) if request.method == 'POST': form = GenBankFastaForm(request.POST) if form.is_valid(): cleaned_data = form.cleaned_data cleaned_data['file_format'] = 'GenBankFASTA' cleaned_data['number_genes'] = '' cleaned_data['translations'] = False cleaned_data['aminoacids'] = False cleaned_data['positions'] = 'ALL' cleaned_data['partition_by_positions'] = 'by gene' cleaned_data['taxon_names'] = ['CODE', 'GENUS', 'SPECIES'] cleaned_data['outgroup'] = '' dataset_creator = CreateDataset(cleaned_data) dataset = dataset_creator.dataset_str dataset_short = dataset[0:1500] + '\n...\n\n\n' + '#######\nComplete dataset file available for download.\n#######' # noqa errors = dataset_creator.errors warnings = dataset_creator.warnings dataset_file_abs = dataset_creator.dataset_file items_with_accession = dataset_creator.sequences_skipped if dataset_file_abs is not None: dataset_file = os.path.basename(dataset_file_abs) else: dataset_file = False cleaned_data['aminoacids'] = True dataset_creator = CreateDataset(cleaned_data) aa_dataset = dataset_creator.dataset_str aa_dataset_file_abs = dataset_creator.dataset_file if aa_dataset_file_abs is not None: aa_dataset_file = os.path.basename(aa_dataset_file_abs) else: aa_dataset_file = False context['items_with_accession'] = items_with_accession context['dataset'] = dataset_short context['fasta_file'] = dataset_file context['protein'] = aa_dataset context['errors'] = errors context['protein_file'] = aa_dataset_file context['warnings'] = warnings return render(request, 'genbank_fasta/results.html', context) else: context["form"] = form return render(request, 'genbank_fasta/index.html', context) return HttpResponseRedirect('/genbank_fasta/')
def search_advanced(request): """Uses the haystack index `advanced_search` to find values based on a combination of queries for one or more fields. Works in a similar way to **genus:Mopho AND species:helenor** :param request: HTTP request from the url dispatcher. :return: response to html template. """ context = get_context(request) if request.method == 'GET' and bool(request.GET) is not False: form = AdvancedSearchForm(request.GET) page = request.GET.get('page') if form.is_valid(): sqs = form.search() results = "" paginator = "" if sqs: paginator = Paginator(sqs, 25) try: results = paginator.page(page) except PageNotAnInteger: # If page is not an integer, deliver first page. results = paginator.page(1) except EmptyPage: # If page is out of range (e.g. 9999), deliver last page of results. results = paginator.page(paginator.num_pages) if sqs is not None: context['page'] = results context['paginator'] = paginator context['results'] = results context['voucher_code_list'] = get_voucher_code_list(sqs) context['simple_query'] = get_simple_query(request) context['url_encoded_query'] = get_correct_url_query( request.GET.urlencode()) context['result_count'] = len(sqs) return render(request, 'public_interface/search_results.html', context) else: context["form"] = form return render(request, 'public_interface/search_results.html', context) else: context["form"] = form return render(request, 'public_interface/search.html', context) else: form = AdvancedSearchForm() context["form"] = form return render(request, 'public_interface/search.html', context)
def generate_results(request): context = get_context(request) if request.method == 'POST': form = CreateDatasetForm(request.POST) if form.is_valid(): dataset_obj_id = schedule_dataset(form.cleaned_data, request.user) return HttpResponseRedirect( reverse('create-dataset-results', kwargs={'dataset_id': dataset_obj_id})) else: log.debug("invalid form") context["form"] = form return render(request, 'create_dataset/index.html', context)
def browse(request): context = get_context(request) queryset = Vouchers.objects.order_by('-modified')[:10] vouchers_with_images = [] # Lookups that span relationships # https://docs.djangoproject.com/en/1.8/topics/db/queries/#lookups-that-span-relationships for i in Vouchers.objects.filter(flickrimages__voucher_id__isnull=False): vouchers_with_images.append(i.code) for i in Vouchers.objects.filter(localimages__voucher_id__isnull=False): vouchers_with_images.append(i.code) context["results"] = queryset context['vouchers_with_images'] = set(vouchers_with_images) return render(request, 'public_interface/browse.html', context)
def browse(request): context = get_context(request) queryset = Vouchers.objects.order_by('-modified')[:10] vouchers_with_images = [] # Lookups that span relationships # https://docs.djangoproject.com/en/1.8/topics/db/queries/#lookups-that-span-relationships for i in Vouchers.objects.filter(flickrimages__voucher_id__isnull=False): vouchers_with_images.append(i.code) for i in Vouchers.objects.filter(localimages__voucher_id__isnull=False): vouchers_with_images.append(i.code) context["results"] = queryset context['vouchers_with_images'] = set(vouchers_with_images) return render(request, 'public_interface/browse.html', context)
def index(request: HttpRequest, voucher_code: str, gene_code: str ) -> HttpResponse: """Execute a blast of sequence against all sequences in the database""" blast = BLASTFull('full', voucher_code, gene_code) blast.save_seqs_to_file() if not blast.is_blast_db_up_to_date(): blast.create_blast_db() blast.save_query_to_file() blast.do_blast() result = blast.parse_blast_output() blast.delete_query_output_files() context = get_context(request) context['result'] = result return render(request, 'blast_local/index.html', context)
def index(request: HttpRequest, voucher_code: str, gene_code: str ) -> HttpResponse: """Execute a blast of sequence against all sequences in the database""" blast = BLASTFull('full', voucher_code, gene_code) blast.save_seqs_to_file() if not blast.is_blast_db_up_to_date(): blast.create_blast_db() blast.save_query_to_file() blast.do_blast() result = blast.parse_blast_output() blast.delete_query_output_files() context = get_context(request) context['result'] = result return render(request, 'blast_local/index.html', context)
def search_advanced(request): """Uses the haystack index `advanced_search` to find values based on a combination of queries for one or more fields. Works in a similar way to **genus:Mopho AND species:helenor** :param request: HTTP request from the url dispatcher. :return: response to html template. """ context = get_context(request) if request.method == 'GET' and bool(request.GET) is not False: form = AdvancedSearchForm(request.GET) page = request.GET.get('page') if form.is_valid(): sqs = form.search() results = "" paginator = "" if sqs: paginator = Paginator(sqs, 25) try: results = paginator.page(page) except PageNotAnInteger: # If page is not an integer, deliver first page. results = paginator.page(1) except EmptyPage: # If page is out of range (e.g. 9999), deliver last page of results. results = paginator.page(paginator.num_pages) if sqs is not None: context['page'] = results context['paginator'] = paginator context['results'] = results context['voucher_code_list'] = get_voucher_code_list(sqs) context['simple_query'] = get_simple_query(request) context['url_encoded_query'] = get_correct_url_query(request.GET.urlencode()) context['result_count'] = len(sqs) return render(request, 'public_interface/search_results.html', context) else: context["form"] = form return render(request, 'public_interface/search_results.html', context) else: context["form"] = form return render(request, 'public_interface/search.html', context) else: form = AdvancedSearchForm() context["form"] = form return render(request, 'public_interface/search.html', context)
def index(request): context = get_context(request) voucher_count = get_voucher_count() queryset = Genes.objects.all().values() result = [] for i in queryset: gene_code = i['gene_code'] try: i['voucher_count'] = voucher_count[gene_code] except KeyError: continue result.append(i) result = sorted(result, key=lambda k: k['gene_code'].lower()) context["result"] = result return render(request, 'view_genes/index.html', context)
def index(request): context = get_context(request) voucher_count = get_voucher_count() queryset = Genes.objects.all().values() result = [] for i in queryset: gene_code = i['gene_code'] try: i['voucher_count'] = voucher_count[gene_code] except KeyError: continue result.append(i) result = sorted(result, key=lambda k: k['gene_code'].lower()) context["result"] = result return render(request, 'view_genes/index.html', context)
def show_sequence(request, voucher_code, gene_code): context = get_context(request) try: queryset = Vouchers.objects.get(code__iexact=voucher_code) except Vouchers.DoesNotExist: raise Http404 seqs_queryset = Sequences.objects.get(code=voucher_code, gene_code=gene_code) images_queryset = FlickrImages.objects.filter(voucher=voucher_code) primers_queryset = Primers.objects.filter(for_sequence=seqs_queryset) context['voucher'] = queryset context['sequence'] = seqs_queryset context['images'] = images_queryset context['primers'] = primers_queryset return render(request, 'public_interface/show_sequence.html', context)
def search(request): """Simple search tool""" context = get_context(request) if 'q' not in request.GET: return redirect('/') query = request.GET['q'].strip() if query == '': return redirect('/') form = SearchForm(request.GET) page = request.GET.get('page') if settings.ELASTICSEARCH is True: sqs = form.search() sqs.spelling_suggestion() results = "" paginator = "" if sqs: paginator = Paginator(sqs, 25) try: results = paginator.page(page) except PageNotAnInteger: # If page is not an integer, deliver first page. results = paginator.page(1) except EmptyPage: # If page is out of range (e.g. 9999), deliver last page of results. results = paginator.page(paginator.num_pages) context['page'] = results context['paginator'] = paginator context['results'] = results context['voucher_code_list'] = get_voucher_code_list(sqs) context['simple_query'] = get_simple_query(request) context['url_encoded_query'] = get_correct_url_query(request.GET.urlencode()) context['result_count'] = len(sqs) return render(request, 'public_interface/search_results.html', context) else: sqs = Vouchers.objects.filter( Q(genus__icontains=query) | Q(species__icontains=query) | Q(code__icontains=query), ) context["result_count"] = len(sqs) context["page"] = {'object_list': sqs} return render(request, 'public_interface/search_results.html', context)
def show_sequence(request, voucher_code, gene_code): context = get_context(request) try: queryset = Vouchers.objects.get(code__iexact=voucher_code) except Vouchers.DoesNotExist: raise Http404 seqs_queryset = Sequences.objects.filter( code=voucher_code, gene__gene_code=gene_code).first() images_queryset = FlickrImages.objects.filter(voucher=voucher_code) primers_queryset = Primers.objects.filter(for_sequence=seqs_queryset) context['voucher'] = queryset context['sequence'] = seqs_queryset context['images'] = images_queryset context['primers'] = primers_queryset return render(request, 'public_interface/show_sequence.html', context)
def gene(request, gene_code): context = get_context(request) queryset = Genes.objects.filter(gene_code=gene_code) if not queryset: item = '' else: item = queryset[0] if ';' in item.intron: introns = item.intron.split(';') j = 1 out = '' for i in introns: out += '<b>Intron ' + str(j) + ':</b> ' + i + ' > ' j += 1 item.intron = out.rstrip(' > ') context["item"] = item return render(request, 'view_genes/gene.html', context)
def index(request): context = get_context(request) genes = Genes.objects.all().order_by('gene_code') vouchers = OverviewTable.objects.all() paginator = Paginator(vouchers, 100) page = request.GET.get('page') try: vouchers_for_page = paginator.page(page) except PageNotAnInteger: vouchers_for_page = paginator.page(1) except EmptyPage: vouchers_for_page = paginator.page(paginator.num_pages) context["data"] = vouchers_for_page context["genes"] = genes context["page_range"] = paginator.page_range return render(request, 'overview_table/index.html', context)
def results(request, dataset_id): context = get_context(request) try: aa_dataset = Dataset.objects.get(id=dataset_id) except Dataset.DoesNotExist: raise Http404(f'such dataset {dataset_id} does not exist') try: nucleotide_dataset = Dataset.objects.get( id=aa_dataset.sister_dataset_id ) except Dataset.DoesNotExist: raise Http404(f'such dataset {dataset_id} does not exist') context['errors'] = list(nucleotide_dataset.errors or []) + list(aa_dataset.errors or []) context['warnings'] = list(nucleotide_dataset.warnings or []) + list(aa_dataset.warnings or []) context['nucleotide_dataset'] = nucleotide_dataset context['aa_dataset'] = aa_dataset return render(request, 'genbank_fasta/results.html', context)
def gene(request, gene_code): context = get_context(request) queryset = Genes.objects.filter(gene_code=gene_code) if not queryset: item = '' else: item = queryset[0] if ';' in item.intron: introns = item.intron.split(';') j = 1 out = '' for i in introns: out += '<b>Intron ' + str(j) + ':</b> ' + i + ' > ' j += 1 item.intron = out.rstrip(' > ') context["item"] = item return render(request, 'view_genes/gene.html', context)
def show_voucher(request, voucher_code): context = get_context(request) try: voucher_queryset = Vouchers.objects.get(code__iexact=voucher_code) except Vouchers.DoesNotExist: raise Http404 flickr_images_queryset = FlickrImages.objects.filter(voucher=voucher_code) local_images_queryset = LocalImages.objects.filter(voucher=voucher_code) images_queryset = list(chain(flickr_images_queryset, local_images_queryset)) seqs_queryset = Sequences.objects.filter( code=voucher_queryset).order_by('gene__gene_code') context['voucher'] = voucher_queryset context['images'] = images_queryset context['sequences'] = seqs_queryset context['google_maps_api_key'] = settings.GOOGLE_MAPS_API_KEY return render(request, 'public_interface/show_voucher.html', context)
def results(request): context = get_context(request) if request.method == 'POST': form = CreateDatasetForm(request.POST) if form.is_valid(): dataset_format = form.cleaned_data['file_format'] dataset_creator = CreateDataset(form.cleaned_data) dataset = "{}{}{}".format( dataset_creator.dataset_str[0:1500], '\n...\n\n\n', '#######\nComplete dataset file available for download.\n#######', ) errors = dataset_creator.errors warnings = set(dataset_creator.warnings) dataset_file_abs = dataset_creator.dataset_file if dataset_file_abs is not None: dataset_file = re.search( '([A-Z]+_[a-z0-9]+\.txt)', dataset_file_abs ).groups()[0] else: dataset_file = False context['dataset_file'] = dataset_file context['charset_block'] = dataset_creator.charset_block context['dataset'] = dataset context['dataset_format'] = dataset_format context['errors'] = errors context['warnings'] = warnings return render(request, 'create_dataset/results.html', context) else: log.debug("invalid form") context["form"] = form return render(request, 'create_dataset/index.html', context) else: return HttpResponseRedirect('/create_dataset/')
def results(request): context = get_context(request) if request.method == 'POST': form = CreateDatasetForm(request.POST) if form.is_valid(): dataset_format = form.cleaned_data['file_format'] dataset_creator = CreateDataset(form.cleaned_data) dataset = "{}{}{}".format( dataset_creator.dataset_str[0:1500], '\n...\n\n\n', '#######\nComplete dataset file available for download.\n#######', ) errors = dataset_creator.errors warnings = set(dataset_creator.warnings) dataset_file_abs = dataset_creator.dataset_file if dataset_file_abs is not None: dataset_file = re.search('([A-Z]+_[a-z0-9]+\.txt)', dataset_file_abs).groups()[0] else: dataset_file = False context['dataset_file'] = dataset_file context['charset_block'] = dataset_creator.charset_block context['dataset'] = dataset context['dataset_format'] = dataset_format context['errors'] = errors context['warnings'] = warnings return render(request, 'create_dataset/results.html', context) else: log.debug("invalid form") context["form"] = form return render(request, 'create_dataset/index.html', context) else: return HttpResponseRedirect('/create_dataset/')
def index(request): form = CreateDatasetForm() context = get_context(request) context["form"] = form return render(request, 'create_dataset/index.html', context)
def index(request): context = get_context(request) return render(request, 'gbif/index.html', context)
def index(request): context = get_context(request) return render(request, 'public_interface/index.html', context)
def index(request): form = CreateDatasetForm() context = get_context(request) context["form"] = form return render(request, 'create_dataset/index.html', context)
def index(request): form = BLASTNewForm() context = get_context(request) context["form"] = form return render(request, 'blast_new/index.html', context=context)
def index(request): form = GenBankFastaForm() context = get_context(request) context["form"] = form return render(request, 'genbank_fasta/index.html', context)
def index(request): form = BLASTNewForm() context = get_context(request) context["form"] = form return render(request, 'blast_new/index.html', context=context)
def index(request): form = GenBankFastaForm() context = get_context(request) context["form"] = form return render(request, 'genbank_fasta/index.html', context)
def index(request): context = get_context(request) return render(request, 'public_interface/index.html', context)
def index(request): context = get_context(request) context["form"] = VoucherTableForm() return render(request, 'voucher_table/index.html', context)
def index(request): form = GeneTableForm() context = get_context(request) context["form"] = form return render(request, 'gene_table/index.html', context)
def index(request): form = GeneTableForm() context = get_context(request) context["form"] = form return render(request, 'gene_table/index.html', context)