From cb8dd88c38c3ce60b187b22ce8699ce460b49e55 Mon Sep 17 00:00:00 2001
From: nick <njbernstein@gmail.com>
Date: Wed, 30 Jun 2021 11:00:08 -0700
Subject: [PATCH] no testdata in pip build

---
 setup.py                                               | 2 +-
 testdata/performance_test_kidney_PoolB4FACs_L4_Rep1.sh | 2 +-
 testdata/performance_test_pbmc_2c.sh                   | 2 +-
 3 files changed, 3 insertions(+), 3 deletions(-)

diff --git a/setup.py b/setup.py
index 7c9aaf6..06525b0 100644
--- a/setup.py
+++ b/setup.py
@@ -26,7 +26,7 @@
     install_requires=[
         l.strip() for l in Path("requirements.txt").read_text("utf-8").splitlines()
     ],
-    packages=find_packages(),
+    packages=find_packages(exclude="testdata"),
     entry_points=dict(
         console_scripts=["solo=solo.solo:main", "hashsolo=solo.hashsolo:main"],
     ),
diff --git a/testdata/performance_test_kidney_PoolB4FACs_L4_Rep1.sh b/testdata/performance_test_kidney_PoolB4FACs_L4_Rep1.sh
index 1931b9b..1f80ce7 100644
--- a/testdata/performance_test_kidney_PoolB4FACs_L4_Rep1.sh
+++ b/testdata/performance_test_kidney_PoolB4FACs_L4_Rep1.sh
@@ -13,5 +13,5 @@
 echo "My SLURM_ARRAY_TASK_ID: " $SLURM_ARRAY_TASK_ID
 echo 'kidney'
 source activate solo-sc
-solo -p -a -g -r 2 --set-reproducible-seed "$SLURM_ARRAY_TASK_ID" -o results_kidney_"$SLURM_ARRAY_TASK_ID" ../solo_params_example.json gene_ad_filtered_PoolB4FACs_L4_Rep1.h5ad
+solo -p -a -g -r 2 --set-reproducible-seed "$SLURM_ARRAY_TASK_ID" -o results_kidney_"$SLURM_ARRAY_TASK_ID" -j ../solo_params_example.json -d gene_ad_filtered_PoolB4FACs_L4_Rep1.h5ad
             
diff --git a/testdata/performance_test_pbmc_2c.sh b/testdata/performance_test_pbmc_2c.sh
index e077c6c..cc420d9 100644
--- a/testdata/performance_test_pbmc_2c.sh
+++ b/testdata/performance_test_pbmc_2c.sh
@@ -13,5 +13,5 @@
 echo "My SLURM_ARRAY_TASK_ID: " $SLURM_ARRAY_TASK_ID
 echo 'pbmc'
 source activate solo-sc
-solo -p -a -g -r 2 --set-reproducible-seed "$SLURM_ARRAY_TASK_ID" -o results_pbmc_"$SLURM_ARRAY_TASK_ID" ../solo_params_example.json 2c.h5ad
+solo -p -a -g -r 2 --set-reproducible-seed "$SLURM_ARRAY_TASK_ID" -o results_pbmc_"$SLURM_ARRAY_TASK_ID" -j ../solo_params_example.json -d 2c.h5ad
             
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