From b158048e29b444dc1c5362d1f9eedf837ece4965 Mon Sep 17 00:00:00 2001
From: Jonathan Karr <jonrkarr@gmail.com>
Date: Tue, 5 Jan 2021 03:58:15 -0500
Subject: [PATCH] updating to biosimulators-utils 0.1.30, incrementing version

---
 Dockerfile                       | 2 +-
 biosimulators_copasi/_version.py | 2 +-
 biosimulators_copasi/core.py     | 5 ++++-
 requirements.txt                 | 2 +-
 4 files changed, 7 insertions(+), 4 deletions(-)

diff --git a/Dockerfile b/Dockerfile
index a2bd221..c92442a 100644
--- a/Dockerfile
+++ b/Dockerfile
@@ -14,7 +14,7 @@
 # Base OS
 FROM python:3.7.9-slim-buster
 
-ARG VERSION="0.1.12"
+ARG VERSION="0.1.13"
 ARG SIMULATOR_VERSION=4.30.233
 
 # metadata
diff --git a/biosimulators_copasi/_version.py b/biosimulators_copasi/_version.py
index e6d0c4f..377e1f6 100644
--- a/biosimulators_copasi/_version.py
+++ b/biosimulators_copasi/_version.py
@@ -1 +1 @@
-__version__ = '0.1.12'
+__version__ = '0.1.13'
diff --git a/biosimulators_copasi/core.py b/biosimulators_copasi/core.py
index 3f2b53f..00af806 100644
--- a/biosimulators_copasi/core.py
+++ b/biosimulators_copasi/core.py
@@ -13,9 +13,11 @@
 from biosimulators_utils.sedml.data_model import (Task, ModelLanguage, UniformTimeCourseSimulation,  # noqa: F401
                                                   DataGeneratorVariable, DataGeneratorVariableSymbol)
 from biosimulators_utils.sedml import validation
+from biosimulators_utils.sedml.exec import exec_sed_doc
 from .data_model import KISAO_ALGORITHMS_MAP
 from .utils import get_algorithm_id, set_algorithm_parameter_value
 import COPASI
+import functools
 import math
 import numpy
 import warnings
@@ -43,7 +45,8 @@ def exec_sedml_docs_in_combine_archive(archive_filename, out_dir,
         bundle_outputs (:obj:`bool`, optional): if :obj:`True`, bundle outputs into archives for reports and plots
         keep_individual_outputs (:obj:`bool`, optional): if :obj:`True`, keep individual output files
     """
-    exec_sedml_docs_in_archive(archive_filename, exec_sed_task, out_dir,
+    sed_doc_executer = functools.partial(exec_sed_doc, exec_sed_task)
+    exec_sedml_docs_in_archive(sed_doc_executer, archive_filename, out_dir,
                                apply_xml_model_changes=True,
                                report_formats=report_formats,
                                plot_formats=plot_formats,
diff --git a/requirements.txt b/requirements.txt
index a888e91..d84f481 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -1,3 +1,3 @@
-biosimulators_utils >= 0.1.28
+biosimulators_utils >= 0.1.30
 numpy
 python_copasi >= 4.30.233