From 861b94b7a5632b3ab2d78e12adc20701e155cc69 Mon Sep 17 00:00:00 2001
From: sandho0000 <michael.sandholzer@unibas.ch>
Date: Fri, 9 Dec 2022 15:42:36 +0100
Subject: [PATCH] test functions added
---
requirements.txt | 7 +++++++
tests/test_read_sequencer.py | 24 +++++++++++++-----------
2 files changed, 20 insertions(+), 11 deletions(-)
create mode 100644 requirements.txt
diff --git a/requirements.txt b/requirements.txt
new file mode 100644
index 0000000..d2abc8c
--- /dev/null
+++ b/requirements.txt
@@ -0,0 +1,7 @@
+argparse
+logging
+random
+collections.abc
+Bio
+Bio.Seq
+Bio.SeqRecord
\ No newline at end of file
diff --git a/tests/test_read_sequencer.py b/tests/test_read_sequencer.py
index 650bb8e..a50af53 100644
--- a/tests/test_read_sequencer.py
+++ b/tests/test_read_sequencer.py
@@ -2,6 +2,7 @@ import pytest
from readsequencer.read_sequencer import ReadSequencer
+
sequencer = ReadSequencer()
@@ -9,19 +10,20 @@ def test_chunksize():
assert sequencer.chunk_size == 10000
-
def test_run_Input():
- assert ReadSequencer(
- fasta="./tests/fasta_testfile/50_seqs_50_1000_bp.fasta",
- output="./tests/fasta_testfile/",
- read_length=1000,
- chunk_size=10000,
- )
+ assert sequencer.fasta == None
+ assert sequencer.read_length == 150
+ assert sequencer.output == None
+ assert sequencer.chunk_size == 10000
def test_run_Random():
assert ReadSequencer(
- output="./tests/fasta_testfile/",
- read_length=1000,
- chunk_size=10000,
- )
\ No newline at end of file
+ output="./tests/fasta_testfile/results.fasta"
+ ).output == "./tests/fasta_testfile/results.fasta"
+ assert ReadSequencer(read_length=1000).read_length == 1000
+ assert ReadSequencer(chunk_size=10000).chunk_size == 10000
+ assert ReadSequencer(
+ output="./tests/fasta_testfile/results.fasta",
+ read_length=1000,
+ chunk_size=10000).fasta == None
--
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