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-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages %}
-
-{%block title%}Upload R/qtl2 Bundle{%endblock%}
-
-{%block contents%}
-<h2 class="heading">Phenotype(ProbeSet) Study</h2>
-
-<div class="row">
- <p>The R/qtl2 bundle you uploaded contains (a) "<strong>pheno</strong>"
- file(s). This data needs to be organised under a study.</p>
- <p>In this page, you can either select from a existing dataset:</p>
-
- <form method="POST"
- action="{{url_for('expression-data.rqtl2.select_probeset_study',
- species_id=species.SpeciesId, population_id=population.Id)}}"
- id="frm:select-probeset-study">
- <legend class="heading">Select from existing ProbeSet studies</legend>
- {{flash_messages("error-rqtl2-select-probeset-study")}}
-
- <input type="hidden" name="species_id" value="{{species.SpeciesId}}" />
- <input type="hidden" name="population_id"
- value="{{population.InbredSetId}}" />
- <input type="hidden" name="rqtl2_bundle_file"
- value="{{rqtl2_bundle_file}}" />
- <input type="hidden" name="geno-dataset-id" value="{{geno_dataset.Id}}" />
- <input type="hidden" name="tissueid" value="{{tissue.Id}}" />
-
- <div>
- <label for="select:probe-study" class="form-label">Study</label>
- <select id="select:probe-study"
- name="probe-study-id"
- required="required"
- aria-describedby="help-select-probeset-study"
- {%if studies | length == 0%}disabled="disabled"{%endif%}
- class="form-control">
- <option value="">Select a study</option>
- {%for study in studies%}
- <option value={{study.Id}}>
- {{study.Name}}
- {%if study.FullName%}
- -- ({{study.FullName}})
- {%endif%}
- </option>
- {%endfor%}
- </select>
- <small id="help-select-probeset-study" class="form-text text-muted">
- Select from existing ProbeSet studies.
- </small>
- </div>
-
- <button type="submit" class="btn btn-primary">select study</button>
- </form>
-</div>
-
-<div class="row">
- <p style="color:#FE3535; padding-left:20em; font-weight:bolder;">OR</p>
-</div>
-
-<div class="row">
-
- <p>Create a new ProbeSet dataset below:</p>
-
- <form method="POST"
- action="{{url_for('expression-data.rqtl2.create_probeset_study',
- species_id=species.SpeciesId, population_id=population.Id)}}"
- id="frm:create-probeset-study">
- <legend class="heading">Create new ProbeSet study</legend>
-
- {{flash_messages("error-rqtl2-create-probeset-study")}}
-
- <input type="hidden" name="species_id" value="{{species.SpeciesId}}" />
- <input type="hidden" name="population_id"
- value="{{population.InbredSetId}}" />
- <input type="hidden" name="rqtl2_bundle_file"
- value="{{rqtl2_bundle_file}}" />
- <input type="hidden" name="geno-dataset-id" value="{{geno_dataset.Id}}" />
- <input type="hidden" name="tissueid" value="{{tissue.Id}}" />
-
- <div>
- <label for="select:platform" class="form-label">Platform</label>
- <select id="select:platform"
- name="platformid"
- required="required"
- aria-describedby="help-select-platform"
- {%if platforms | length == 0%}disabled="disabled"{%endif%}
- class="form-control">
- <option value="">Select a platform</option>
- {%for platform in platforms%}
- <option value="{{platform.GeneChipId}}">
- {{platform.GeneChipName}} ({{platform.Name}})
- </option>
- {%endfor%}
- </select>
- <small id="help-select-platform" class="form-text text-muted">
- Select from a list of known genomics platforms.
- </small>
- </div>
-
- <div class="form-group">
- <label for="txt:studyname" class="form-label">Study name</label>
- <input type="text" id="txt:studyname" name="studyname"
- placeholder="Name of the study. (Required)"
- required="required"
- maxlength="100"
- class="form-control" />
- <span class="form-text text-muted" id="help-study-name">
- Provide a name for the study.</span>
- </div>
-
- <div class="form-group">
- <label for="txt:studyfullname" class="form-label">Full Study Name</label>
- <input type="text"
- id="txt:studyfullname"
- name="studyfullname"
- placeholder="Longer name of the study. (Optional)"
- maxlength="100"
- class="form-control" />
- <span class="form-text text-muted" id="help-study-full-name">
- Provide a longer, more descriptive name for the study. This is optional
- and you can leave it blank.
- </span>
- </div>
-
- <div class="form-group">
- <label for="txt:studyshortname" class="form-label">Short Study Name</label>
- <input type="text"
- id="txt:studyshortname"
- name="studyshortname"
- placeholder="Shorter name of the study. (Optional)"
- maxlength="100"
- class="form-control" />
- <span class="form-text text-muted" id="help-study-short-name">
- Provide a shorter name for the study. This is optional and you can leave
- it blank.
- </span>
- </div>
-
- <button type="submit" class="btn btn-primary">create study</button>
- </form>
-</div>
-
-{%endblock%}