Review tweaks

Author: jeromekelleher

docs/inference.md

@@ -217,7 +217,7 @@ reduce the number of ancestral recombination events by postulating a "synthetic
 ancestor" with this breakpoint, existing at a slightly older point
 in time, from whom all the children are descended at this genomic position. We
 call the algorithm used to implement this addition to the ancestral copying
-paths, "path compression". Path compression is off by default.
+paths, "path compression".
 
 (sec_inference_match_ancestors)=
 
@@ -280,4 +280,4 @@ The final phase of a `tsinfer` inference consists of a number steps:
        section
     2. Describe the structure of the output tree sequences; how the
        nodes are mapped, what the time values mean, etc.
-:::
+:::

tests/test_matcher_fixtures.py

@@ -30,7 +30,6 @@
 import pytest
 
 from tsinfer import config, matching, vcz
-from tsinfer.config import MatchJob
 
 # ---------------------------------------------------------------------------
 # Helpers
@@ -52,7 +51,7 @@ def read_haplotype(self, job):
 
 def _match(ts, positions, query, allele_mapper):
     """Run the current Matcher and return (path, mutations) as tuples."""
-    job = MatchJob(
+    job = config.MatchJob(
         haplotype_index=0,
         source="test",
         sample_id="s0",
@@ -74,7 +73,7 @@ def _match(ts, positions, query, allele_mapper):
 
 def _add_node(ts, time, path_segments, mutations, allele_mapper):
     """Add a single ancestor node to *ts* via extend_ts."""
-    job = MatchJob(
+    job = config.MatchJob(
         haplotype_index=0,
         source="test",
         sample_id="s0",