diff options
Diffstat (limited to 'qc_app/templates')
| -rw-r--r-- | qc_app/templates/rqtl2/create-tissue-success.html | 104 | ||||
| -rw-r--r-- | qc_app/templates/rqtl2/select-probeset-study-id.html | 20 | ||||
| -rw-r--r-- | qc_app/templates/rqtl2/select-tissue.html | 112 |
3 files changed, 218 insertions, 18 deletions
diff --git a/qc_app/templates/rqtl2/create-tissue-success.html b/qc_app/templates/rqtl2/create-tissue-success.html new file mode 100644 index 0000000..ea05624 --- /dev/null +++ b/qc_app/templates/rqtl2/create-tissue-success.html @@ -0,0 +1,104 @@ +{%extends "base.html"%} +{%from "flash_messages.html" import flash_all_messages%} + +{%block title%}Upload R/qtl2 Bundle{%endblock%} + +{%block contents%} +<h2 class="heading">Select Tissue</h2> + +<div class="explainer"> + <p>You have successfully added a new tissue, organ or biological material with + the following details:</p> +</div> + +{{flash_all_messages()}} + +<form id="frm-create-tissue-display" + method="POST" + action="#"> + <legend class="heading">Create Tissue</legend> + + <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}}" /> + + <fieldset> + <label>Name</label> + <label>{{tissue.TissueName}}</label> + </fieldset> + + <fieldset> + <label>Short Name</label> + <label>{{tissue.Short_Name}}</label> + </fieldset> + + {%if tissue.BIRN_lex_ID%} + <fieldset> + <label>BIRN Lex ID</label> + <label>{{tissue.BIRN_lex_ID}}</label> + </fieldset> + {%endif%} + + {%if tissue.BIRN_lex_Name%} + <fieldset> + <label>BIRN Lex Name</label> + <label>{{tissue.BIRN_lex_Name}}</label> + </fieldset> + {%endif%} +</form> + +<div id="action-buttons" + style="width:65ch;display:inline-grid;column-gap:5px;"> + + <form id="frm-create-tissue-success-continue" + method="POST" + action="{{url_for('upload.rqtl2.select_dataset_info', + species_id=species.SpeciesId, + population_id=population.InbredSetId)}}" + style="display: inline; width: 100%; grid-column: 1 / 2; + padding-top: 0.5em; text-align: center; border: none; + background-color: inherit;"> + + <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}}" /> + + <input type="submit" + value="continue" + class="btn btn-main form-col-2" /> + </form> + + <p style="display:inline;width:100%;grid-column:2/3;text-align:center; + color:#336699;font-weight:bold;"> + OR + </p> + + <form id="frm-create-tissue-success-select-existing" + method="POST" + action="{{url_for('upload.rqtl2.select_tissue', + species_id=species.SpeciesId, + population_id=population.InbredSetId)}}" + style="display: inline; width: 100%; grid-column: 3 / 4; + padding-top: 0.5em; text-align: center; border: none; + background-color: inherit;"> + + <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="submit" + value="select from existing tissues" + class="btn btn-main form-col-2" /> + </form> + +</div> + +{%endblock%} diff --git a/qc_app/templates/rqtl2/select-probeset-study-id.html b/qc_app/templates/rqtl2/select-probeset-study-id.html index 3bbb94a..23bbbf0 100644 --- a/qc_app/templates/rqtl2/select-probeset-study-id.html +++ b/qc_app/templates/rqtl2/select-probeset-study-id.html @@ -26,6 +26,7 @@ <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}}" /> <fieldset> <label for="select:probe-study">Study</label> @@ -71,6 +72,7 @@ <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}}" /> <fieldset> <label for="select:platform">Platform</label> @@ -90,24 +92,6 @@ </fieldset> <fieldset> - <label for="select:tissue">Tissue</label> - <select id="select:tissue" - name="tissueid" - required="required" - {%if tissues | length == 0%}disabled="disabled"{%endif%}> - <option value="">Select tissue</option> - {%for tissue in tissues%} - <option value="{{tissue.Id}}"> - {{tissue.TissueName}} ({{tissue.Short_Name}}) - </option> - {%endfor%} - </select> - <span class="form-col-2"> - Select the Tissue to which the data is concerned. - </span> - </fieldset> - - <fieldset> <label for="txt:studyname">Study name</label> <input type="text" id="txt:studyname" name="studyname" placeholder="Name of the study. (Required)" diff --git a/qc_app/templates/rqtl2/select-tissue.html b/qc_app/templates/rqtl2/select-tissue.html new file mode 100644 index 0000000..6f7d134 --- /dev/null +++ b/qc_app/templates/rqtl2/select-tissue.html @@ -0,0 +1,112 @@ +{%extends "base.html"%} +{%from "flash_messages.html" import flash_messages%} + +{%block title%}Upload R/qtl2 Bundle{%endblock%} + +{%block contents%} +<h2 class="heading">Tissue</h2> + +<div class="explainer"> + <p>The data you are uploading concerns a tissue, cell, organ, or other + biological material used in an experiment.</p> + <p>Select the appropriate biological material below</p> +</div> + +{%if tissues | length > 0%} +<form method="POST" + action="{{url_for('upload.rqtl2.select_tissue', + species_id=species.SpeciesId, population_id=population.Id)}}" + id="frm:select-probeset-dataset"> + <legend class="heading">Select from existing ProbeSet datasets</legend> + {{flash_messages("error-select-tissue")}} + + <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}}" /> + + <fieldset> + <label for="select-tissue">Tissue</label> + <select id="select-tissue" + name="tissueid" + required="required" + {%if tissues | length == 0%}disabled="disabled"{%endif%}> + <option value="">Select a tissue</option> + {%for tissue in tissues%} + <option value={{tissue.Id}}> + {{tissue.Name}} + {%if tissue.Short_Name%} + -- ({{tissue.Short_Name}}) + {%endif%} + </option> + {%endfor%} + </select> + + <span class="form-col-2">Select from existing biological material.</span> + </fieldset> + + <fieldset> + <input type="submit" + value="use selected" + class="btn btn-main form-col-2" /> + </fieldset> +</form> + +<p style="color:#FE3535; padding-left:20em; font-weight:bolder;">OR</p> +{%endif%} + +<div class="explainer"> + <p>If you cannot find the biological material in the drop-down above, add it + to the system below.</p> +</div> + +<form method="POST" + action="{{url_for('upload.rqtl2.create_tissue', + species_id=species.SpeciesId, population_id=population.Id)}}" + id="frm:create-probeset-dataset"> + <legend class="heading">Add new tissue, organ or biological material</legend> + {{flash_messages("error-create-tissue")}} + + <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}}" /> + + <fieldset> + <label for="tissue-name">name</label> + <input type="text" + id="txt-tissuename" + name="tissuename" + required="required" + title = "A name to identify the tissue, organ or biological material." /> + + <span class="form-col-2"> + A name to identify the tissue, organ or biological material. + </span> + </fieldset> + + <fieldset> + <label for="txt-shortname">short name</label> + <input type="text" id="txt-tissueshortname" name="tissueshortname" + required="required" + maxlength="7" + title="A short name (e.g. 'Mam') for the biological material." /> + + <span class="form-col-2"> + Provide a short name for the tissue, organ or biological material used in + the experiment. + </span> + </fieldset> + + <fieldset> + <input type="submit" + value="add new material" + class="btn btn-main form-col-2" /> + </fieldset> +</form> + +{%endblock%} |