Start of custom context menu for procedure creation

src/submissions/backend/db/models/submissions.py

@@ -1297,7 +1297,7 @@ class Run(BaseClass, LogMixin):
             submission_rank = self.get_submission_rank_of_sample(sample=sample)
             if submission_rank != 0:
                 row, column = plate_dict[submission_rank]
-                ranked_samples.append(dict(sample_id=sample.sample_id, row=row, column=column, submission_rank=submission_rank, background_color="#6ffe1d"))
+                ranked_samples.append(dict(well_id=sample.sample_id, sample_id=sample.sample_id, row=row, column=column, submission_rank=submission_rank, background_color="#6ffe1d"))
             else:
                 unranked_samples.append(sample)
         possible_ranks = (item for item in list(plate_dict.keys()) if item not in [sample['submission_rank'] for sample in ranked_samples])
@@ -1310,21 +1310,18 @@ class Run(BaseClass, LogMixin):
                 continue
             row, column = plate_dict[submission_rank]
             ranked_samples.append(
-                dict(sample_id=sample.sample_id, row=row, column=column, submission_rank=submission_rank,
+                dict(well_id=sample.sample_id, sample_id=sample.sample_id, row=row, column=column, submission_rank=submission_rank,
                      background_color="#6ffe1d"))
         padded_list = []
         for iii in range(1, proceduretype.total_wells+1):
             sample = next((item for item in ranked_samples if item['submission_rank']==iii),
-                          dict(sample_id="", row=0, column=0, submission_rank=iii)
+                          dict(well_id=f"blank_{iii}", sample_id="", row=0, column=0, submission_rank=iii, background_color="#ffffff")
                           )
             padded_list.append(sample)
-        logger.debug(f"Final padded list:\n{pformat(list(sorted(padded_list, key=itemgetter('submission_rank'))))}")
+        # logger.debug(f"Final padded list:\n{pformat(list(sorted(padded_list, key=itemgetter('submission_rank'))))}")
         return list(sorted(padded_list, key=itemgetter('submission_rank')))
 
 
-
-
-
 class SampleType(BaseClass):
     id = Column(INTEGER, primary_key=True)  #: primary key
     name = Column(String(64), nullable=False, unique=True)  #: identification from submitter

src/submissions/backend/validators/pydant.py

@@ -1397,53 +1397,17 @@ class PydProcedure(PydBaseClass, arbitrary_types_allowed=True):
             self.reagentrole = {}
         self.possible_kits.insert(0, self.possible_kits.pop(self.possible_kits.index(kittype)))
 
-    def shuffle_samples(self, source_row: int, source_column: int, destination_row: int, destination_column=int):
+    def update_samples(self, sample_list: List[dict]):
-        logger.debug(f"Attempting sample shuffle.")
+        logger.debug(f"Incoming sample_list:\n{pformat(sample_list)}")
-        try:
+        for sample_dict in sample_list:
-            source_sample = next(
+            try:
-                (sample for sample in self.samples if sample.row == source_row and sample.column == source_column))
+                sample = next((item for item in self.samples if item.sample_id.upper()==sample_dict['sample_id'].upper()))
-        except StopIteration:
+            except StopIteration:
-            raise StopIteration("Couldn't find proper sample.")
+                continue
-        logger.debug(f"Source Well: {source_row}, {source_column}")
+            row, column = self.proceduretype.ranked_plate[sample_dict['index']]
-        logger.debug(f"Destination Well: {destination_row}, {destination_column}")
+            sample.row = row
-        updateable_samples = []
+            sample.column = column
-        if source_row > destination_row and source_column >= destination_column:
+        logger.debug(f"Updated samples:\n{pformat(self.samples)}")
-            logger.debug(f"Sample was moved ahead.")
-            movement = "pos"
-            for sample in self.samples:
-                if sample.row >= destination_row and sample.column >= destination_column:
-                    if sample.row <= source_row and sample.column <= source_column:
-                        updateable_samples.append(sample)
-
-        elif source_row < destination_row and source_column <= destination_column:
-            logger.debug(f"Sample was moved back.")
-            movement = "neg"
-            for sample in self.samples:
-                if sample.row <= destination_row and sample.column <= destination_column:
-                    if sample.row >= source_row and sample.column >= source_column:
-                        updateable_samples.append(sample)
-        else:
-            logger.debug(f"Don't know what happened.")
-        logger.debug(f"Samples to be updated: {pformat(updateable_samples)}")
-        for sample in updateable_samples:
-            if sample.row == source_row and sample.column == source_column:
-                sample.row = destination_row
-                sample.column = destination_column
-            else:
-                match movement:
-                    case "pos":
-                        if sample.row + 1 > 8:
-                            sample.column += 1
-                            sample.row = 1
-                        else:
-                            sample.row += 1
-                    case "neg":
-                        if sample.row - 1 <= 0:
-                            sample.column -= 1
-                            sample.row = 8
-                        else:
-                            sample.row -= 1
-
 
 
 class PydClientSubmission(PydBaseClass):

src/submissions/frontend/widgets/procedure_creation.py

@@ -0,0 +1,117 @@
+"""
+
+"""
+from __future__ import annotations
+import sys, logging
+from pathlib import Path
+from pprint import pformat
+
+from PyQt6.QtCore import pyqtSlot, Qt
+from PyQt6.QtGui import QContextMenuEvent, QAction
+from PyQt6.QtWebChannel import QWebChannel
+from PyQt6.QtWebEngineWidgets import QWebEngineView
+from PyQt6.QtWidgets import QDialog, QGridLayout, QMenu
+from typing import TYPE_CHECKING, Any
+
+if TYPE_CHECKING:
+    from backend.db.models import Run, ProcedureType
+from tools import jinja_template_loading, get_application_from_parent
+from backend.validators import PydProcedure
+
+logger = logging.getLogger(f"submissions.{__name__}")
+
+
+class ProcedureCreation(QDialog):
+
+    def __init__(self, parent, run: Run, proceduretype: ProcedureType):
+        super().__init__(parent)
+        self.run = run
+        self.proceduretype = proceduretype
+        self.setWindowTitle(f"New {proceduretype.name} for { run.rsl_plate_num }")
+        self.created_procedure = self.proceduretype.construct_dummy_procedure(run=self.run)
+        self.created_procedure.update_kittype_reagentroles(kittype=self.created_procedure.possible_kits[0])
+        self.created_procedure.samples = self.run.constuct_sample_dicts_for_proceduretype(proceduretype=self.proceduretype)
+        # logger.debug(f"Samples to map\n{pformat(self.created_procedure.samples)}")
+        self.plate_map = self.proceduretype.construct_plate_map(sample_dicts=self.created_procedure.samples)
+        # logger.debug(f"Plate map: {self.plate_map}")
+        # logger.debug(f"Created dummy: {self.created_procedure}")
+        self.app = get_application_from_parent(parent)
+        self.webview = QWebEngineView(parent=self)
+        self.webview.setContextMenuPolicy(Qt.ContextMenuPolicy.NoContextMenu)
+        self.webview.setMinimumSize(1200, 800)
+        self.webview.setMaximumWidth(1200)
+        # NOTE: Decide if exporting should be allowed.
+        # self.webview.loadFinished.connect(self.activate_export)
+        self.layout = QGridLayout()
+        # NOTE: button to export a pdf version
+        self.layout.addWidget(self.webview, 1, 0, 10, 10)
+        self.setLayout(self.layout)
+        self.setFixedWidth(self.webview.width() + 20)
+        # NOTE: setup channel
+        self.channel = QWebChannel()
+        self.channel.registerObject('backend', self)
+        self.set_html()
+        self.webview.page().setWebChannel(self.channel)
+
+    def set_html(self):
+        env = jinja_template_loading()
+        template = env.get_template("procedure_creation.html")
+        template_path = Path(template.environment.loader.__getattribute__("searchpath")[0])
+        with open(template_path.joinpath("css", "styles.css"), "r") as f:
+            css = f.read()
+        html = template.render(proceduretype=self.proceduretype.as_dict, run=self.run.to_dict(),
+                               procedure=self.created_procedure.__dict__, plate_map=self.plate_map, css=css)
+        with open("procedure.html", "w") as f:
+            f.write(html)
+        self.webview.setHtml(html)
+
+    @pyqtSlot(str, str)
+    def text_changed(self, key: str, new_value: str):
+        # logger.debug(f"New value for {key}: {new_value}")
+        attribute = getattr(self.created_procedure, key)
+        attribute['value'] = new_value
+
+    @pyqtSlot(str, bool)
+    def check_toggle(self, key: str, ischecked: bool):
+        # logger.debug(f"{key} is checked: {ischecked}")
+        setattr(self.created_procedure, key, ischecked)
+
+    @pyqtSlot(str)
+    def update_kit(self, kittype):
+        self.created_procedure.update_kittype_reagentroles(kittype=kittype)
+        logger.debug({k: v for k, v in self.created_procedure.__dict__.items() if k != "plate_map"})
+        self.set_html()
+
+    @pyqtSlot(list)
+    def rearrange_plate(self, sample_list: list):
+        self.created_procedure.update_samples(sample_list=sample_list)
+
+    @pyqtSlot(str, str)
+    def log_drag(self, source_well: str, destination_well: str):
+        logger.debug(f"Source Index: {source_well} Destination Index: {destination_well}")
+        # source_well = source_well.split("-")
+        # destination_well = destination_well.split("-")
+        # source_row = int(source_well[0])
+        # source_column = int(source_well[1])
+        # destination_row = int(destination_well[0])
+        # destination_column = int(destination_well[1])
+        # self.created_procedure.shuffle_samples(
+        #     source_row=source_row,
+        #     source_column=source_column,
+        #     destination_row=destination_row,
+        #     destination_column=destination_column
+        # )
+
+
+# class ProcedureWebViewer(QWebEngineView):
+#
+#     def __init__(self, *args, **kwargs):
+#         super().__init__(*args, **kwargs)
+#
+#     def contextMenuEvent(self, event: QContextMenuEvent):
+        # self.menu = self.page().createStandardContextMenu()
+        # self.menu = self.createStandardContextMenu()
+        # add_sample = QAction("Add Sample")
+        # self.menu = QMenu()
+        # self.menu.addAction(add_sample)
+        # self.menu.popup(event.globalPos())

src/submissions/templates/css/styles.css

@@ -109,4 +109,14 @@ div.gallery {
 .grid-item p {
   max-width: 100%;
   border-radius: 8px;
-}
+}
+
+.context-menu {
+    display: none;
+    position: absolute;
+    z-index: 10;
+}
+
+.context-menu--active {
+    display: block;
+}

src/submissions/templates/plate_map.html

@@ -1,6 +1,6 @@
         <div class="plate" id="plate-container" style="grid-template-columns: repeat({{ plate_columns }}, {{ vw }}vw);grid-template-rows: repeat({{ plate_rows }}, {{ vw }}vw);">
             {% for sample in samples %}
-                <div class="well" draggable="true" id="sample_{{ sample['submission_rank'] }}" style="background-color: {{ sample['background_color'] }};">
+                <div class="well" draggable="true" id="{{ sample['well_id'] }}" style="background-color: {{ sample['background_color'] }};">
                   <p style="font-size: 0.7em; text-align: center; word-wrap: break-word;">{{ sample['sample_id'] }}</p>
 <!--                    <div class="tooltip" style="font-size: 0.5em; text-align: center; word-wrap: break-word;">{{ sample['sample_id'] }}-->
 <!--                        <span class="tooltiptext">{{ sample['tooltip'] }}</span>-->

src/submissions/templates/procedure_creation.html

@@ -45,6 +45,25 @@
             </div>
         </div>
         {% endblock %}
+        <nav class="context-menu">
+            <ul class="context-menu__items">
+                <li class="context-menu__item">
+                    <a href="#" class="context-menu__link">
+                        <i class="fa fa-eye"></i> View Task
+                    </a>
+                </li>
+                <li class="context-menu__item">
+                    <a href="#" class="context-menu__link">
+                        <i class="fa fa-edit"></i> Edit Task
+                    </a>
+                </li>
+                <li class="context-menu__item">
+                    <a href="#" class="context-menu__link">
+                        <i class="fa fa-times"></i> Delete Task
+                    </a>
+                </li>
+            </ul>
+        </nav>
     </body>
     <script>
         {% block script %}
@@ -114,11 +133,25 @@
 			output = [];
 			fullGrid = [...gridContainer.children];
 			fullGrid.forEach(function(item, index) {
-			    output.push({item: item, index: index})
+			    output.push({sample_id: item.id, index: index + 1})
 			});
-			backend.replow(output);
+			backend.rearrange_plate(output);
 		  }
 		});
+	// Context Menu Functionality
+	var wells = document.querySelectorAll(".well");
+    for ( var i = 0, len = wells.length; i < len; i++ ) {
+        var welloi = wells[i];
+
+        welloi.addEventListener( "contextmenu", function(e) {
+                well = e.target
+                backend.log_drag(well.id, "el");
+            });
+        };
+
+
+
+
      {% endblock %}
     </script>
 </html>