From 8e1febf3bff91c54602e080a72e76891d4de4a60 Mon Sep 17 00:00:00 2001
From: paulzierep <paul.zierep@googlemail.com>
Date: Tue, 4 Jun 2024 11:06:05 +0200
Subject: [PATCH] Update extract_all_tools_stepwise.sh (#108)

---
 bin/extract_all_tools_stepwise.sh | 5 +++--
 1 file changed, 3 insertions(+), 2 deletions(-)

diff --git a/bin/extract_all_tools_stepwise.sh b/bin/extract_all_tools_stepwise.sh
index 3b238041..8545fd43 100755
--- a/bin/extract_all_tools_stepwise.sh
+++ b/bin/extract_all_tools_stepwise.sh
@@ -9,14 +9,15 @@ if [[ $1 =~ "01" ]]; then
    python bin/extract_galaxy_tools.py \
         extractools \
         --api $GITHUB_API_KEY \
-        --all-tools $output \
+        --all-tools $tsv_output \
         --all-tools-json $json_output \
         --planemo-repository-list $1
 else
    python bin/extract_galaxy_tools.py \
         extractools \
         --api $GITHUB_API_KEY \
-        --all-tools $output \
+        --all-tools $tsv_output \
+        --all-tools-json $json_output \
         --planemo-repository-list $1 \
         --avoid-extra-repositories
 fi