From bd91da9cabb4314baf678899ce91e0946c39e88e Mon Sep 17 00:00:00 2001
From: Thomas Cokelaer <cokelaer@gmail.com>
Date: Tue, 5 Dec 2023 10:43:35 +0100
Subject: [PATCH] hotfix to use on HPC clusters

---
 README.rst                                    |  1 +
 pyproject.toml                                |  2 +-
 sequana_pipelines/ribofinder/__init__.py      | 15 ++++++++++-----
 sequana_pipelines/ribofinder/ribofinder.rules |  4 ++--
 4 files changed, 14 insertions(+), 8 deletions(-)

diff --git a/README.rst b/README.rst
index 24846f4..6c691f6 100644
--- a/README.rst
+++ b/README.rst
@@ -109,6 +109,7 @@ Changelog
 ========= ====================================================================
 Version   Description
 ========= ====================================================================
+1.1.1     * hotfix for running on HPC (slurm)
 1.1.0     * Uses click (refactoring of sequana_pipetools)
 1.0.1     * add sequana_wrappers in the config/pipeline
 1.0.0     * use graphviz apptainer and latest wrappers
diff --git a/pyproject.toml b/pyproject.toml
index dea6c01..6e39ead 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -4,7 +4,7 @@ build-backend = "poetry.core.masonry.api"
 
 [tool.poetry]
 name = "sequana-ribofinder"
-version = "1.1.0"
+version = "1.1.1"
 description = "A multi-sample identification of ribosomal content"
 authors = ["Sequana Team"]
 license = "BSD-3"
diff --git a/sequana_pipelines/ribofinder/__init__.py b/sequana_pipelines/ribofinder/__init__.py
index 132e999..6d5f263 100644
--- a/sequana_pipelines/ribofinder/__init__.py
+++ b/sequana_pipelines/ribofinder/__init__.py
@@ -1,6 +1,11 @@
-import pkg_resources
-try:
-    version = pkg_resources.require("sequana_ribofinder")[0].version
-except:
-    version = ">=0.8.0"
+import importlib.metadata as metadata
+
+def get_package_version(package_name):
+    try:
+        version = metadata.version(package_name)
+        return version
+    except metadata.PackageNotFoundError:
+        return f"{package_name} not found"
+
+version = get_package_version("sequana-ribofinder")
 
diff --git a/sequana_pipelines/ribofinder/ribofinder.rules b/sequana_pipelines/ribofinder/ribofinder.rules
index bc7c88a..3fc0753 100644
--- a/sequana_pipelines/ribofinder/ribofinder.rules
+++ b/sequana_pipelines/ribofinder/ribofinder.rules
@@ -184,7 +184,7 @@ rule fix_bowtie1_log:
     input:
         expand("{sample}/bowtie1/{sample}.log", sample=manager.samples)
     output:
-        "logs/fix_bowtie1_log"
+        "logs/fix_bowtie1_log/done"
     run:
         for filename in input:
             # we read the file
@@ -273,7 +273,7 @@ rule bam_indexing:
 # ========================================================== multiqc
 #
 sequana_multiqc_input = expand("{sample}/bowtie1/{sample}.sorted.bam.bai", sample=sorted(manager.samples))
-sequana_multiqc_input += ["logs/fix_bowtie1_log"]
+sequana_multiqc_input += ["logs/fix_bowtie1_log/done"]
 
 
 rule multiqc: