trackplot 0.6.0__tar.gz → 0.6.1__tar.gz

{trackplot-0.6.0/trackplot.egg-info → trackplot-0.6.1}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: trackplot
-Version: 0.6.0
+Version: 0.6.1
 Summary: The trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and full-length sequencing datasets. https://sashimi.readthedocs.io/
 Author-email: ygidtu <ygidtu@gmail.com>
 License-Expression: BSD-3-Clause

{trackplot-0.6.0 → trackplot-0.6.1}/pyproject.toml

@@ -1,6 +1,6 @@
 [project]
 name = "trackplot"
-version = "0.6.0"
+version = "0.6.1"
 description = "The trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and full-length sequencing datasets. https://sashimi.readthedocs.io/"
 authors = [
     { name = "ygidtu", email = "ygidtu@gmail.com" }

{trackplot-0.6.0 → trackplot-0.6.1}/trackplot/file/Bam.py

@@ -366,11 +366,9 @@ class Bam(SingleCell):
 
                 if kept:
                     if k.strand == "+":
-                        spanned_junctions_plus[k] = 1 + spanned_junctions_plus.get(k, v)
+                        spanned_junctions_plus[k] = v
                     elif k.strand == "-":
-                        spanned_junctions_minus[k] = -1 + spanned_junctions_minus.get(
-                            k, v
-                        )
+                        spanned_junctions_minus[k] = v
 
         except IOError as err:
             logger.error("There is no .bam file at {0}".format(self.path))

{trackplot-0.6.0 → trackplot-0.6.1}/trackplot/plot/core.py

@@ -880,7 +880,7 @@ class Plot(object):
                 graph_coords=self.graph_coords,
                 **kwargs,
             )
-            logger.info(f"{_max} {_min}")
+
             if obj.label in same_y_by_groups:
                 key = same_y_by_groups[obj.label]
                 max_used_y_dict[key] = max(_max, max_used_y_dict.get(key, 0))

{trackplot-0.6.0 → trackplot-0.6.1}/trackplot/plot/render.py

@@ -500,7 +500,6 @@ def plot_density(
         fill_step=fill_step,
         show_mean_jxn_number=show_mean_jxn_number,
     )
-    logger.info(f"precomputed y limits: {max_used_y_val} {min_used_y_val}")
 
     # Draw fill
     x, y1, y2 = [], [], []
@@ -531,6 +530,8 @@ def plot_density(
         min_junction_count = min(jxns.values()) if jxns else 0
         junction_count_gap = max_junction_count - min_junction_count
 
+        text_objs = []
+
         for jxn_idx, jxn in enumerate(jxns_sorted_list):
             leftss, rightss = jxn.start, jxn.end
             if (
@@ -619,6 +620,17 @@ def plot_density(
                     backgroundcolor="w",
                 )
                 t.set_bbox(dict(alpha=0))
+                text_objs.append(t)
+
+        if show_junction_number and len(text_objs) > 1:
+            adjust_text(
+                text_objs,
+                ax=ax,
+                force_text=(0.5, 0.5),
+                expand=(1.2, 1.2),
+                arrowprops=None,
+                lim=100,
+            )
 
     if obj and obj.title:
         ax.text(

{trackplot-0.6.0 → trackplot-0.6.1/trackplot.egg-info}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: trackplot
-Version: 0.6.0
+Version: 0.6.1
 Summary: The trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and full-length sequencing datasets. https://sashimi.readthedocs.io/
 Author-email: ygidtu <ygidtu@gmail.com>
 License-Expression: BSD-3-Clause