From abd74548f57c7c6dae8fd7fde53615805e72811e Mon Sep 17 00:00:00 2001
From: Blaise Li <blaise.li__git@nsup.org>
Date: Thu, 20 Dec 2018 11:28:42 +0100
Subject: [PATCH] More robust python module install.
Depending on pip version, `pip3.6` sometimes fail with
"ImportError: cannot import name 'main'".
Using `python3.6 -m pip` instead avoids this.
---
install.sh | 4 ++--
libhts/libhts.py | 2 +-
2 files changed, 3 insertions(+), 3 deletions(-)
diff --git a/install.sh b/install.sh
index 06391fd..5ddc41a 100755
--- a/install.sh
+++ b/install.sh
@@ -1,5 +1,5 @@
#!/bin/sh
python3.6 setup.py build_ext
# .egg-link does not work with PYTHONPATH ?
-pip3.6 install -e .
-pip3.6 install --no-deps --ignore-installed .
+python3.6 -m pip install -e .
+python3.6 -m pip install --no-deps --ignore-installed .
diff --git a/libhts/libhts.py b/libhts/libhts.py
index 5b4e1b0..4e63398 100644
--- a/libhts/libhts.py
+++ b/libhts/libhts.py
@@ -139,7 +139,7 @@ def gtf_2_genes_exon_lengths(gtf_filename):
def repeat_bed_2_lengths(repeat_bed):
- """Computes the lengths of repeatitive elements in a bed file, grouped by families.
+ """Computes the lengths of repetitive elements in a bed file, grouped by families.
This assumes that the elements have their names composed of the family name,
then a colon, then a number. For instance:
Simple_repeat|Simple_repeat|(TTTTTTG)n:1
--
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