post review fixup

fulcrumgenomics · Jan 15, 2025 · 4b06255 · 4b06255
1 parent 4abd9e5
commit 4b06255
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Showing 2 changed files with 12 additions and 7 deletions.
diff --git a/prymer/thermo.py b/prymer/thermo.py
@@ -11,11 +11,16 @@ class Thermo:
     """
     Class for performing thermodynamic calculations.  Available calculations include:
 
-      1. melting temperature (Tm) for short and long sequences ([`tm()`][prymer.thermo.Thermo.tm])
-      2. hairpin / secondary structure Tm for single sequences ([`hairpin_tm`][prymer.thermo.Thermo.hairpin_tm])
-      3. homodimer Tm - the Tm of a duplex formed from two copies of the same sequence ([`homodimer_tm `][prymer.thermo.Thermo. homodimer_tm])
-      4. heterodimer Tm - the Tm of a duplex formed from two different sequences ([`heterodimer_tm `][prymer.thermo.Thermo. heterodimer_tm])
-      5. 3' anchored heterodimer Tm - the heterodimer Tm when annealing of the 3' end is prioritized ([`heterodimer_3p_anchored_tm `][prymer.thermo.Thermo. heterodimer_3p_anchored_tm])
+      1. melting temperature (Tm) for short and long sequences
+         (see [`tm()`][prymer.thermo.Thermo.tm])
+      2. hairpin / secondary structure Tm for single sequences
+         (see [`hairpin_tm()`][prymer.thermo.Thermo.hairpin_tm])
+      3. homodimer Tm - the Tm of a duplex formed from two copies of the same sequence
+        (see [`homodimer_tm()`][prymer.thermo.Thermo.homodimer_tm])
+      4. heterodimer Tm - the Tm of a duplex formed from two different sequences
+         (see [`heterodimer_tm()`][prymer.thermo.Thermo.heterodimer_tm])
+      5. 3' anchored heterodimer Tm - the heterodimer Tm when annealing of the 3' end is prioritized
+         (see [`heterodimer_3p_anchored_tm()`][prymer.thermo.Thermo.heterodimer_3p_anchored_tm])
 
     The `tm` method can be used for sequences of any length.  For sequences up to `max_nn_length`
     (default value 60 bases) the nearest neighborhood Tm calculation is used.  For sequences above

diff --git a/tests/test_thermo.py b/tests/test_thermo.py
@@ -56,8 +56,8 @@ def test_heterodimer_tm() -> None:
 
 def test_heterodimer_3p_anchored_tm() -> None:
     thermo = Thermo()
-    tm1 = thermo. heterodimer_3p_anchored_tm("AAAAAAAAAA", "CCCCCCCCCC")
-    tm2 = thermo. heterodimer_3p_anchored_tm("AAAAAAAAAA", "TTTTTTTTTT")
+    tm1 = thermo.heterodimer_3p_anchored_tm("AAAAAAAAAA", "CCCCCCCCCC")
+    tm2 = thermo.heterodimer_3p_anchored_tm("AAAAAAAAAA", "TTTTTTTTTT")
 
     assert tm1 == 0
     assert tm2 > 0