Update reference output (#34)

* update example output * Add warning about using julia internals
medyan-dev · Apr 17, 2024 · 2f5ff6d · 2f5ff6d
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diff --git a/README.md b/README.md
@@ -17,6 +17,10 @@ import Pkg
 Pkg.add("MEDYANSimRunner")
 ```
 
+## Warning: MEDYANSimRunner may be incompatible with a future release of Julia.
+
+Specifically `MEDYANSimRunner` uses `ccall` `:jl_fs_rename` and expects `copy(Random.default_rng())` to be `Xoshiro`. These are Julia internals.
+
 ## Example
 Run the following in the root of this repo.
 ```sh

diff --git a/...023-11-28T16-50-38_y2FTQCVDIWYF/error.log → ...024-04-16T21-32-19_4kVtO7Ok23oi/error.log b/...023-11-28T16-50-38_y2FTQCVDIWYF/error.log → ...024-04-16T21-32-19_4kVtO7Ok23oi/error.log
diff --git a/...2023-11-28T16-49-15_6xonGUWlYngi/info.log → ...2024-04-16T21-32-19_4kVtO7Ok23oi/info.log b/...2023-11-28T16-49-15_6xonGUWlYngi/info.log → ...2024-04-16T21-32-19_4kVtO7Ok23oi/info.log
@@ -1,38 +1,38 @@
-┌ Info: 2023-11-28T16:49:15 Starting new job.
+┌ Info: 2024-04-16T21:32:19 Starting new job.
 └ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:133
-┌ Info: 2023-11-28T16:49:15 Julia Version: 1.9.4
-│ MEDYANSimRunner Version: 0.5.2
+┌ Info: 2024-04-16T21:32:19 Julia Version: 1.10.2
+│ MEDYANSimRunner Version: 0.5.4
 │ OS: Linux (x86_64-linux-gnu)
-│ CPU: Intel(R) Core(TM) i7-10700KF CPU @ 3.80GHz
+│ CPU: AMD Ryzen 7 7800X3D 8-Core Processor
 │ WORD_SIZE: 64
-│ LLVM: libLLVM-14.0.6 (ORCJIT skylake)
+│ LLVM: libLLVM-15.0.7 (ORCJIT znver3)
 │ Threads: 1 on 16 virtual cores
 └ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:134
-┌ Info: 2023-11-28T16:49:15 Setup complete.
+┌ Info: 2024-04-16T21:32:19 Setup complete.
 └ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:145
-┌ Info: 2023-11-28T16:49:15 Simulation started.
+┌ Info: 2024-04-16T21:32:19 Simulation started.
 └ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:154
-┌ Info: 2023-11-28T16:49:15 step 1 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:49:15 step 2 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:49:15 step 3 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:49:15 step 4 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:49:15 step 5 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:49:15 step 6 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:49:15 step 7 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:49:15 step 8 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:49:15 step 9 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:49:15 step 10 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:49:15 step 11 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:49:15 Simulation completed.
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:325
+┌ Info: 2024-04-16T21:32:19 step 1 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T21:32:19 step 2 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T21:32:19 step 3 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T21:32:19 step 4 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T21:32:19 step 5 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T21:32:19 step 6 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T21:32:19 step 7 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T21:32:19 step 8 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T21:32:19 step 9 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T21:32:19 step 10 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T21:32:19 step 11 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T21:32:19 Simulation completed.
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:331
diff --git a/...2023-11-28T16-50-38_y2FTQCVDIWYF/warn.log → ...2024-04-16T21-32-19_4kVtO7Ok23oi/warn.log b/...2023-11-28T16-50-38_y2FTQCVDIWYF/warn.log → ...2024-04-16T21-32-19_4kVtO7Ok23oi/warn.log
diff --git a/test/example/output-ref-1_10/a/traj/footer.json b/test/example/output-ref-1_10/a/traj/footer.json
@@ -1,4 +1,4 @@
 {
     "steps": 11,
-    "prev_sha256": "858a821e8b5c67b9c55e77064443bea55cf8be8d06fa745f21433e0664992966"
+    "prev_sha256": "c779170cadabe478e6f68b8a5aa087db7ab79df5ccda4fcda030ca588d4d40ed"
 }
diff --git a/test/example/output-ref-1_10/a/traj/snap0.zarr.zip b/test/example/output-ref-1_10/a/traj/snap0.zarr.zip
diff --git a/test/example/output-ref-1_10/a/traj/snap1.zarr.zip b/test/example/output-ref-1_10/a/traj/snap1.zarr.zip
diff --git a/test/example/output-ref-1_10/a/traj/snap10.zarr.zip b/test/example/output-ref-1_10/a/traj/snap10.zarr.zip
diff --git a/test/example/output-ref-1_10/a/traj/snap11.zarr.zip b/test/example/output-ref-1_10/a/traj/snap11.zarr.zip
diff --git a/test/example/output-ref-1_10/a/traj/snap2.zarr.zip b/test/example/output-ref-1_10/a/traj/snap2.zarr.zip
diff --git a/test/example/output-ref-1_10/a/traj/snap3.zarr.zip b/test/example/output-ref-1_10/a/traj/snap3.zarr.zip
diff --git a/test/example/output-ref-1_10/a/traj/snap4.zarr.zip b/test/example/output-ref-1_10/a/traj/snap4.zarr.zip
diff --git a/test/example/output-ref-1_10/a/traj/snap5.zarr.zip b/test/example/output-ref-1_10/a/traj/snap5.zarr.zip
diff --git a/test/example/output-ref-1_10/a/traj/snap6.zarr.zip b/test/example/output-ref-1_10/a/traj/snap6.zarr.zip
diff --git a/test/example/output-ref-1_10/a/traj/snap7.zarr.zip b/test/example/output-ref-1_10/a/traj/snap7.zarr.zip
diff --git a/test/example/output-ref-1_10/a/traj/snap8.zarr.zip b/test/example/output-ref-1_10/a/traj/snap8.zarr.zip
diff --git a/test/example/output-ref-1_10/a/traj/snap9.zarr.zip b/test/example/output-ref-1_10/a/traj/snap9.zarr.zip
diff --git a/...023-11-28T16-49-15_6xonGUWlYngi/error.log → ...024-04-16T22-02-43_qTqXCG6WUzJx/error.log b/...023-11-28T16-49-15_6xonGUWlYngi/error.log → ...024-04-16T22-02-43_qTqXCG6WUzJx/error.log
diff --git a/...2023-11-28T16-50-38_y2FTQCVDIWYF/info.log → ...2024-04-16T22-02-43_qTqXCG6WUzJx/info.log b/...2023-11-28T16-50-38_y2FTQCVDIWYF/info.log → ...2024-04-16T22-02-43_qTqXCG6WUzJx/info.log
@@ -1,38 +1,38 @@
-┌ Info: 2023-11-28T16:50:38 Starting new job.
+┌ Info: 2024-04-16T22:02:43 Starting new job.
 └ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:133
-┌ Info: 2023-11-28T16:50:38 Julia Version: 1.10.0-rc1
-│ MEDYANSimRunner Version: 0.5.2
+┌ Info: 2024-04-16T22:02:43 Julia Version: 1.9.4
+│ MEDYANSimRunner Version: 0.5.4
 │ OS: Linux (x86_64-linux-gnu)
-│ CPU: Intel(R) Core(TM) i7-10700KF CPU @ 3.80GHz
+│ CPU: AMD Ryzen 7 7800X3D 8-Core Processor
 │ WORD_SIZE: 64
-│ LLVM: libLLVM-15.0.7 (ORCJIT skylake)
+│ LLVM: libLLVM-14.0.6 (ORCJIT znver3)
 │ Threads: 1 on 16 virtual cores
 └ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:134
-┌ Info: 2023-11-28T16:50:38 Setup complete.
+┌ Info: 2024-04-16T22:02:43 Setup complete.
 └ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:145
-┌ Info: 2023-11-28T16:50:38 Simulation started.
+┌ Info: 2024-04-16T22:02:43 Simulation started.
 └ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:154
-┌ Info: 2023-11-28T16:50:38 step 1 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:50:38 step 2 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:50:38 step 3 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:50:38 step 4 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:50:38 step 5 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:50:38 step 6 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:50:38 step 7 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:50:38 step 8 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:50:38 step 9 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:50:38 step 10 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:50:38 step 11 of 11 done
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:167
-┌ Info: 2023-11-28T16:50:38 Simulation completed.
-└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:325
+┌ Info: 2024-04-16T22:02:43 step 1 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T22:02:43 step 2 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T22:02:43 step 3 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T22:02:43 step 4 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T22:02:43 step 5 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T22:02:43 step 6 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T22:02:43 step 7 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T22:02:43 step 8 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T22:02:43 step 9 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T22:02:43 step 10 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T22:02:43 step 11 of 11 done
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:168
+┌ Info: 2024-04-16T22:02:43 Simulation completed.
+└ @ MEDYANSimRunner /home/nathan/juliadev/MEDYANSimRunner/src/run-sim.jl:331
diff --git a/...2023-11-28T16-49-15_6xonGUWlYngi/warn.log → ...2024-04-16T22-02-43_qTqXCG6WUzJx/warn.log b/...2023-11-28T16-49-15_6xonGUWlYngi/warn.log → ...2024-04-16T22-02-43_qTqXCG6WUzJx/warn.log
diff --git a/test/example/output-ref-1_9/a/traj/footer.json b/test/example/output-ref-1_9/a/traj/footer.json
@@ -1,4 +1,4 @@
 {
     "steps": 11,
-    "prev_sha256": "028031634b968ea546b390ae2fe13d1b2ebb36d03383f93998affe212d398809"
+    "prev_sha256": "5429ba43e4b1c417f2840e0a1bb8116a67d1715d471116d8102f9ebee00d7003"
 }
diff --git a/test/example/output-ref-1_9/a/traj/snap0.zarr.zip b/test/example/output-ref-1_9/a/traj/snap0.zarr.zip
diff --git a/test/example/output-ref-1_9/a/traj/snap1.zarr.zip b/test/example/output-ref-1_9/a/traj/snap1.zarr.zip
diff --git a/test/example/output-ref-1_9/a/traj/snap10.zarr.zip b/test/example/output-ref-1_9/a/traj/snap10.zarr.zip
diff --git a/test/example/output-ref-1_9/a/traj/snap11.zarr.zip b/test/example/output-ref-1_9/a/traj/snap11.zarr.zip
diff --git a/test/example/output-ref-1_9/a/traj/snap2.zarr.zip b/test/example/output-ref-1_9/a/traj/snap2.zarr.zip
diff --git a/test/example/output-ref-1_9/a/traj/snap3.zarr.zip b/test/example/output-ref-1_9/a/traj/snap3.zarr.zip
diff --git a/test/example/output-ref-1_9/a/traj/snap4.zarr.zip b/test/example/output-ref-1_9/a/traj/snap4.zarr.zip
diff --git a/test/example/output-ref-1_9/a/traj/snap5.zarr.zip b/test/example/output-ref-1_9/a/traj/snap5.zarr.zip
diff --git a/test/example/output-ref-1_9/a/traj/snap6.zarr.zip b/test/example/output-ref-1_9/a/traj/snap6.zarr.zip
diff --git a/test/example/output-ref-1_9/a/traj/snap7.zarr.zip b/test/example/output-ref-1_9/a/traj/snap7.zarr.zip
diff --git a/test/example/output-ref-1_9/a/traj/snap8.zarr.zip b/test/example/output-ref-1_9/a/traj/snap8.zarr.zip
diff --git a/test/example/output-ref-1_9/a/traj/snap9.zarr.zip b/test/example/output-ref-1_9/a/traj/snap9.zarr.zip