Exemplo n.º 1
0
 def isStrandInSet(self, strand: StrandT) -> bool:
     sl = self.strand_array
     if sl[strand.lowIdx()] == strand and sl[strand.highIdx()] == strand:
         return True
     else:
         return False
Exemplo n.º 2
0
    def _updateAppearance(self, strand: StrandT):
        """Prepare Strand for drawing, positions are relative to the
        :class:`PathVirtualHelixItem`:

        1. Show or hide caps depending on L and R connectivity.
        2. Determine line coordinates.
        3. Apply paint styles.
        """
        # 0. Setup
        vhi = self._virtual_helix_item
        bw = _BASE_WIDTH
        half_base_width = bw / 2.0
        low_idx, high_idx = strand.lowIdx(), strand.highIdx()

        l_upper_left_x, l_upper_left_y = vhi.upperLeftCornerOfBase(
            low_idx, strand)
        h_upper_left_x, h_upper_left_y = vhi.upperLeftCornerOfBase(
            high_idx, strand)
        low_cap = self._low_cap
        high_cap = self._high_cap
        dual_cap = self._dual_cap

        # 1. Cap visibilty
        lx = l_upper_left_x + bw  # draw from right edge of base
        low_cap.safeSetPos(l_upper_left_x, l_upper_left_y)
        if strand.connectionLow() is not None:  # has low xover
            # if we are hiding it, we might as well make sure it is reparented to the StrandItem
            low_cap.restoreParent()
            low_cap.hide()
        else:  # has low cap
            if not low_cap.isVisible():
                low_cap.show()

        hx = h_upper_left_x  # draw to edge of base
        high_cap.safeSetPos(h_upper_left_x, h_upper_left_y)
        if strand.connectionHigh() is not None:  # has high xover
            # if we are hiding it, we might as well make sure it is reparented to the StrandItem
            high_cap.restoreParent()
            high_cap.hide()
        else:  # has high cap
            if not high_cap.isVisible():
                high_cap.show()

        # special case: single-base strand with no L or H connections,
        # (unconnected caps were made visible in previous block of code)
        if strand.length() == 1 and (low_cap.isVisible()
                                     and high_cap.isVisible()):
            low_cap.hide()
            high_cap.hide()
            dual_cap.safeSetPos(l_upper_left_x, l_upper_left_y)
            dual_cap.show()
        else:
            dual_cap.hide()

        # 2. Xover drawing
        xo = self.xover_3p_end
        if strand.connection3p():
            xo.update(strand)
            xo.showIt()
        else:
            xo.restoreParent()
            xo.hideIt()

        # 3. Refresh insertionItems if necessary drawing
        self.refreshInsertionItems(strand)

        # 4. Line drawing
        hy = ly = l_upper_left_y + half_base_width
        self.setLine(lx, ly, hx, hy)
        rectf = QRectF(l_upper_left_x + bw, l_upper_left_y,
                       bw * (high_idx - low_idx - 1), bw)
        self._click_area.setRect(rectf)
        self._updateColor(strand)
Exemplo n.º 3
0
    def _updateAppearance(self, strand: StrandT):
        """Prepare Strand for drawing, positions are relative to the
        :class:`PathVirtualHelixItem`:

        1. Show or hide caps depending on L and R connectivity.
        2. Determine line coordinates.
        3. Apply paint styles.
        """
        # 0. Setup
        vhi = self._virtual_helix_item
        bw = _BASE_WIDTH
        half_base_width = bw / 2.0
        low_idx, high_idx = strand.lowIdx(), strand.highIdx()

        l_upper_left_x, l_upper_left_y = vhi.upperLeftCornerOfBase(low_idx, strand)
        h_upper_left_x, h_upper_left_y = vhi.upperLeftCornerOfBase(high_idx, strand)
        low_cap = self._low_cap
        high_cap = self._high_cap
        dual_cap = self._dual_cap

        # 1. Cap visibilty
        lx = l_upper_left_x + bw  # draw from right edge of base
        low_cap.safeSetPos(l_upper_left_x, l_upper_left_y)
        if strand.connectionLow() is not None:  # has low xover
            # if we are hiding it, we might as well make sure it is reparented to the StrandItem
            low_cap.restoreParent()
            low_cap.hide()
        else:  # has low cap
            if not low_cap.isVisible():
                low_cap.show()

        hx = h_upper_left_x  # draw to edge of base
        high_cap.safeSetPos(h_upper_left_x, h_upper_left_y)
        if strand.connectionHigh() is not None:  # has high xover
            # if we are hiding it, we might as well make sure it is reparented to the StrandItem
            high_cap.restoreParent()
            high_cap.hide()
        else:  # has high cap
            if not high_cap.isVisible():
                high_cap.show()

        # special case: single-base strand with no L or H connections,
        # (unconnected caps were made visible in previous block of code)
        if strand.length() == 1 and (low_cap.isVisible() and high_cap.isVisible()):
            low_cap.hide()
            high_cap.hide()
            dual_cap.safeSetPos(l_upper_left_x, l_upper_left_y)
            dual_cap.show()
        else:
            dual_cap.hide()

        # 2. Xover drawing
        xo = self.xover_3p_end
        if strand.connection3p():
            xo.update(strand)
            xo.showIt()
        else:
            xo.restoreParent()
            xo.hideIt()

        # 3. Refresh insertionItems if necessary drawing
        self.refreshInsertionItems(strand)

        # 4. Line drawing
        hy = ly = l_upper_left_y + half_base_width
        self.setLine(lx, ly, hx, hy)
        rectf = QRectF(l_upper_left_x + bw, l_upper_left_y, bw*(high_idx - low_idx - 1), bw)
        self._click_area.setRect(rectf)
        self._updateColor(strand)
Exemplo n.º 4
0
 def isStrandInSet(self, strand: StrandT) -> bool:
     sl = self.strand_array
     if sl[strand.lowIdx()] == strand and sl[strand.highIdx()] == strand:
         return True
     else:
         return False