From 85ef00ea8a117f08a120bcf819786e52588f8d8b Mon Sep 17 00:00:00 2001
From: Ronan Fleming <ronan.mt.fleming@gmail.com>
Date: Thu, 7 Nov 2024 22:53:58 +0000
Subject: [PATCH] test files

---
 .../analysis/testPrint/surfNet.txt            | 24 +++++++++++++++++++
 .../analysis/testTopology/test.ext            |  0
 .../analysis/testTopology/test.ine            | 13 ++++++++++
 .../analysis/testTopology/test_manual.ine     | 13 ++++++++++
 4 files changed, 50 insertions(+)
 create mode 100644 test/verifiedTests/analysis/testPrint/surfNet.txt
 create mode 100644 test/verifiedTests/analysis/testTopology/test.ext
 create mode 100644 test/verifiedTests/analysis/testTopology/test.ine
 create mode 100644 test/verifiedTests/analysis/testTopology/test_manual.ine

diff --git a/test/verifiedTests/analysis/testPrint/surfNet.txt b/test/verifiedTests/analysis/testPrint/surfNet.txt
new file mode 100644
index 0000000000..47ca1b44c3
--- /dev/null
+++ b/test/verifiedTests/analysis/testPrint/surfNet.txt
@@ -0,0 +1,24 @@
+
+Met #1  13dpg[c]
+
+Consuming reactions: none
+Producing reactions:
+  #49  <a href="matlab: surfNet([], 'GAPD', 0, NaN, 0, 1, [], 0, 0.800000);">GAPD</a>
+<a href="matlab: surfNet([], 'g3p[c]', 0, NaN, 0, 1, [], 0, 0.800000);">g3p[c]</a> + <a href="matlab: surfNet([], 'nad[c]', 0, NaN, 0, 1, [], 0, 0.800000);">nad[c]</a> + <a href="matlab: surfNet([], 'pi[c]', 0, NaN, 0, 1, [], 0, 0.800000);">pi[c]</a>   <=>   <a href="matlab: surfNet([], '13dpg[c]', 0, NaN, 0, 1, [], 0, 0.800000);">13dpg[c]</a> + <a href="matlab: surfNet([], 'h[c]', 0, NaN, 0, 1, [], 0, 0.800000);">h[c]</a> + <a href="matlab: surfNet([], 'nadh[c]', 0, NaN, 0, 1, [], 0, 0.800000);">nadh[c]</a> 
+  #75  <a href="matlab: surfNet([], 'PGK', 0, NaN, 0, 1, [], 0, 0.800000);">PGK</a>
+<a href="matlab: surfNet([], '3pg[c]', 0, NaN, 0, 1, [], 0, 0.800000);">3pg[c]</a> + <a href="matlab: surfNet([], 'atp[c]', 0, NaN, 0, 1, [], 0, 0.800000);">atp[c]</a>   <=>   <a href="matlab: surfNet([], '13dpg[c]', 0, NaN, 0, 1, [], 0, 0.800000);">13dpg[c]</a> + <a href="matlab: surfNet([], 'adp[c]', 0, NaN, 0, 1, [], 0, 0.800000);">adp[c]</a> 
+
+<a href="matlab: surfNet([], [], 0, NaN, 0, 1, [], 0, 0.800000, struct('showPrev', true));">Show previous steps...</a>
+
+Met #1  13dpg[c]
+
+Consuming reactions: none
+Producing reactions:
+  #49  <a href="matlab: surfNet([], 'GAPD', 0, NaN, 0, 1, [], 0, 0.800000);">GAPD</a>
+<a href="matlab: surfNet([], 'g3p[c]', 0, NaN, 0, 1, [], 0, 0.800000);">g3p[c]</a> + <a href="matlab: surfNet([], 'nad[c]', 0, NaN, 0, 1, [], 0, 0.800000);">nad[c]</a> + <a href="matlab: surfNet([], 'pi[c]', 0, NaN, 0, 1, [], 0, 0.800000);">pi[c]</a>   <=>   <a href="matlab: surfNet([], '13dpg[c]', 0, NaN, 0, 1, [], 0, 0.800000);">13dpg[c]</a> + <a href="matlab: surfNet([], 'h[c]', 0, NaN, 0, 1, [], 0, 0.800000);">h[c]</a> + <a href="matlab: surfNet([], 'nadh[c]', 0, NaN, 0, 1, [], 0, 0.800000);">nadh[c]</a> 
+  #75  <a href="matlab: surfNet([], 'PGK', 0, NaN, 0, 1, [], 0, 0.800000);">PGK</a>
+<a href="matlab: surfNet([], '3pg[c]', 0, NaN, 0, 1, [], 0, 0.800000);">3pg[c]</a> + <a href="matlab: surfNet([], 'atp[c]', 0, NaN, 0, 1, [], 0, 0.800000);">atp[c]</a>   <=>   <a href="matlab: surfNet([], '13dpg[c]', 0, NaN, 0, 1, [], 0, 0.800000);">13dpg[c]</a> + <a href="matlab: surfNet([], 'adp[c]', 0, NaN, 0, 1, [], 0, 0.800000);">adp[c]</a> 
+
+<a href="matlab: surfNet([], [], 0, NaN, 0, 1, [], 0, 0.800000, struct('showPrev', true));">Show previous steps...</a>
+'NOTEXIST' is not a metabolite, reaction or gene of the model.
+Searching for related objects:
diff --git a/test/verifiedTests/analysis/testTopology/test.ext b/test/verifiedTests/analysis/testTopology/test.ext
new file mode 100644
index 0000000000..e69de29bb2
diff --git a/test/verifiedTests/analysis/testTopology/test.ine b/test/verifiedTests/analysis/testTopology/test.ine
new file mode 100644
index 0000000000..33dd512c6c
--- /dev/null
+++ b/test/verifiedTests/analysis/testTopology/test.ine
@@ -0,0 +1,13 @@
+/home/rfleming/drive/sbgCloud/code/fork-cobratoolbox/test/verifiedTests/analysis/testTopology/test
+H-representation
+linearity 7 1 2 3 4 5 6 7
+begin
+7 10 integer
+0 -1 0 0 0 0 0 1 0 0
+0 1 -2 -2 0 0 0 0 0 0
+0 0 1 0 0 -1 -1 0 0 0
+0 0 0 1 -1 1 0 0 0 0
+0 0 0 0 1 0 1 0 -1 0
+0 0 1 1 0 0 0 0 0 -1
+0 0 0 -1 1 -1 0 0 0 0
+end
diff --git a/test/verifiedTests/analysis/testTopology/test_manual.ine b/test/verifiedTests/analysis/testTopology/test_manual.ine
new file mode 100644
index 0000000000..33dd512c6c
--- /dev/null
+++ b/test/verifiedTests/analysis/testTopology/test_manual.ine
@@ -0,0 +1,13 @@
+/home/rfleming/drive/sbgCloud/code/fork-cobratoolbox/test/verifiedTests/analysis/testTopology/test
+H-representation
+linearity 7 1 2 3 4 5 6 7
+begin
+7 10 integer
+0 -1 0 0 0 0 0 1 0 0
+0 1 -2 -2 0 0 0 0 0 0
+0 0 1 0 0 -1 -1 0 0 0
+0 0 0 1 -1 1 0 0 0 0
+0 0 0 0 1 0 1 0 -1 0
+0 0 1 1 0 0 0 0 0 -1
+0 0 0 -1 1 -1 0 0 0 0
+end