diff --git a/HISTORY.md b/HISTORY.md
index f73bf92..b7c7290 100644
--- a/HISTORY.md
+++ b/HISTORY.md
@@ -1,5 +1,10 @@
 # History
 
+1.5.1 (2024-02-01)
+------------------
+
+* Fixes #44, where `--use_raven` was not working (Flye would be used instead). Thanks @[wanyuac](https://github.com/wanyuac).
+
 1.5.0 (2023-11-21)
 ------------------
 
diff --git a/docs/requirements.txt b/docs/requirements.txt
index 2e1b2ba..30bc2c1 100644
--- a/docs/requirements.txt
+++ b/docs/requirements.txt
@@ -1,4 +1,4 @@
 Pygments==2.15.0
 pymdown-extensions==10.0
-jinja2==3.0.3
+jinja2>=3.1.3
 Markdown==3.3.7
diff --git a/mkdocs.yml b/mkdocs.yml
deleted file mode 100644
index cf66129..0000000
--- a/mkdocs.yml
+++ /dev/null
@@ -1,35 +0,0 @@
-site_name: plassembler
-site_url: "https://github.com/gbouras13/plassembler"
-site_author: George Bouras
-theme:
-    name: readthedocs
-    highlightjs: true
-    hljs_languages:
-        - yaml
-        - bash
-        - shell
-        - python
-nav:
-    - ABOUT:
-      - Overview: index.md
-      - Why Use Plassembler?: reasons.md
-      - Method: method.md
-    - RUNNING:
-      - Install: install.md
-      - Usage: run.md
-    - OUTPUT:
-      - Output: output.md
-    - CITATION:
-      - Citation: citation.md
-    - BENCHMARKING:
-      - Fastq Preparation: fastqs.md
-      - Simulated Read Results: benchmarking_results_sim.md
-      - Real Read Results: benchmarking_results_real.md
-      - Flye Non Determinism: flye_non_determinism.md
-    - OTHER FEATURES:
-      - Quality Control: quality_control.md
-      - Multiple Chromosomes: multiple_chromosome.md
-      - Metagenomes: metagenomics.md
-      - Long v1.3.0: long.md
-      - Long v1.2.0 (superceded): long_old.md
-
diff --git a/pyproject.toml b/pyproject.toml
index 4414504..8018178 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "plassembler"
-version = "1.5.0" # change VERSION too
+version = "1.5.1" # change VERSION too
 description = "Quickly and accurately assemble plasmids in hybrid sequenced bacterial isolates"
 authors = ["George Bouras <george.bouras@adelaide.edu.au>"]
 license = "MIT"
diff --git a/src/plassembler/__init__.py b/src/plassembler/__init__.py
index 79462fa..21bb87a 100644
--- a/src/plassembler/__init__.py
+++ b/src/plassembler/__init__.py
@@ -400,6 +400,7 @@ def run(
     logger.info(f"--flye_assembly is {flye_assembly}")
     logger.info(f"--flye_info is {flye_info}")
     logger.info(f"--no_chromosome is {no_chromosome}")
+    logger.info(f"--use_raven is {use_raven}")
     logdir = Path(f"{outdir}/logs")
 
     # check deps
@@ -455,8 +456,12 @@ def run(
         skip_assembly = True
 
     if skip_assembly is False:
-        logger.info("Running Flye.")
-        run_flye(outdir, threads, raw_flag, pacbio_model, logdir)
+        if use_raven is False:
+            logger.info("Running Flye.")
+            run_flye(outdir, threads, raw_flag, pacbio_model, logdir)
+        else:
+            logger.info("Running Raven.")
+            run_raven(outdir, threads, logdir)
     else:
         if flye_directory != "nothing":
             logger.info(
diff --git a/src/plassembler/utils/CITATION b/src/plassembler/utils/CITATION
index b2135fe..271f913 100644
--- a/src/plassembler/utils/CITATION
+++ b/src/plassembler/utils/CITATION
@@ -1,4 +1,3 @@
 Please cite plassembler in your paper using:
 
-Bouras, G., Sheppard A.E., Mallawaarachchi, V., Vreugde S. (2023) Plassembler https://github.com/gbouras13/plassembler.
-
+Bouras, G., Sheppard A.E., Mallawaarachchi, V., Vreugde S. (2023) Plassembler: an automated bacterial plasmid assembly tool, Bioinformatics, Volume 39, Issue 7, July 2023, btad409, https://doi.org/10.1093/bioinformatics/btad409
\ No newline at end of file
diff --git a/src/plassembler/utils/VERSION b/src/plassembler/utils/VERSION
index 3e1ad72..8e03717 100644
--- a/src/plassembler/utils/VERSION
+++ b/src/plassembler/utils/VERSION
@@ -1 +1 @@
-1.5.0
\ No newline at end of file
+1.5.1
\ No newline at end of file
diff --git a/tests/test_end_to_end.py b/tests/test_end_to_end.py
index 0d5da4a..0af5ac7 100644
--- a/tests/test_end_to_end.py
+++ b/tests/test_end_to_end.py
@@ -90,6 +90,17 @@ def test_plassembler_case_1(self):
         exec_command(cmd)
         remove_directory(outdir)
 
+    def test_plassembler_case_1_use_raven(self):
+        """test plassembler run - chromosome only assembled with Flye, no plasmids - plasmids recovered from the short reads"""
+        longreads: Path = f"{end_to_end}/case1.fastq.gz"
+        s1: Path = f"{end_to_end}/input_R1.fastq.gz"
+        s2: Path = f"{end_to_end}/input_R2.fastq.gz"
+        chromosome = 50000
+        outdir: Path = f"{end_to_end}/test_out"
+        cmd = f"plassembler run -l {longreads} -c {chromosome} -1 {s1} -2 {s2} -d {plassembler_db_dir} -o {outdir}  -t 8 -f"
+        exec_command(cmd)
+        remove_directory(outdir)
+
     def test_plassembler_case_2(self):
         with self.assertRaises(RuntimeError):
             """test plassembler run case 2 no chromosome assembled at all"""