From a368c8db96004f3fef09f52b775aa983edf49d5f Mon Sep 17 00:00:00 2001
From: arjunsavel <asavel@gmail.com>
Date: Wed, 21 Aug 2024 17:33:12 -0400
Subject: [PATCH] ok so testing better now

---
 src/scope/emcee_fit_hires.py            | 49 ++++++++++++-------------
 src/scope/run_simulation.py             |  2 +-
 src/scope/tests/conftest.py             |  2 +-
 src/scope/tests/test_emcee_fit_hires.py |  7 ++--
 src/scope/tests/test_run_simulation.py  |  2 +-
 5 files changed, 31 insertions(+), 31 deletions(-)

diff --git a/src/scope/emcee_fit_hires.py b/src/scope/emcee_fit_hires.py
index e589e79..af2b14f 100644
--- a/src/scope/emcee_fit_hires.py
+++ b/src/scope/emcee_fit_hires.py
@@ -47,33 +47,32 @@ def log_prob(
     Kp, Vsys, log_scale = x
     scale = np.power(10, log_scale)
     prior_val = prior(x, best_kp)
+
     if not np.isfinite(prior_val):
         return -np.inf
-    return (
-        prior_val
-        + calc_log_likelihood(
-            Vsys,
-            Kp,
-            scale,
-            wl_cube_model,
-            wl_model,
-            Fp_conv,
-            Fstar_conv,
-            flux_cube,
-            n_order,
-            n_exposure,
-            n_pixel,
-            phases,
-            Rp_solar,
-            Rstar,
-            rv_semiamp_orbit,
-            A_noplanet,
-            do_pca=do_pca,
-            n_princ_comp=n_princ_comp,
-            star=star,
-            observation="emission",
-        )[0]
-    )
+    ll = calc_log_likelihood(
+        Vsys,
+        Kp,
+        scale,
+        wl_cube_model,
+        wl_model,
+        Fp_conv,
+        Fstar_conv,
+        flux_cube,
+        n_order,
+        n_exposure,
+        n_pixel,
+        phases,
+        Rp_solar,
+        Rstar,
+        rv_semiamp_orbit,
+        A_noplanet,
+        do_pca=do_pca,
+        n_princ_comp=n_princ_comp,
+        star=star,
+        observation="transmission",
+    )[0]
+    return prior_val + ll
 
 
 # @numba.njit
diff --git a/src/scope/run_simulation.py b/src/scope/run_simulation.py
index 5463ca2..9f00c18 100644
--- a/src/scope/run_simulation.py
+++ b/src/scope/run_simulation.py
@@ -278,7 +278,7 @@ def make_data(
     )  # returning CCF and logL values
 
 
-@njit
+# @njit
 def calc_log_likelihood(
     v_sys,
     Kp,
diff --git a/src/scope/tests/conftest.py b/src/scope/tests/conftest.py
index 01b03d3..c66d69b 100644
--- a/src/scope/tests/conftest.py
+++ b/src/scope/tests/conftest.py
@@ -76,7 +76,7 @@ def test_baseline_outouts(test_inputs):
         star=True,
         SNR=0,
         rv_semiamp_orbit=0.3229,
-        observation="emission",
+        observation="transmission",
         tell_type="data-driven",
         time_dep_tell=False,
         wav_error=False,
diff --git a/src/scope/tests/test_emcee_fit_hires.py b/src/scope/tests/test_emcee_fit_hires.py
index adcd528..083f8ee 100644
--- a/src/scope/tests/test_emcee_fit_hires.py
+++ b/src/scope/tests/test_emcee_fit_hires.py
@@ -42,9 +42,10 @@ def test_likelihood(test_baseline_outouts, test_inputs):
     Rstar = 1.0
     phases = np.linspace(-0.01, 0.01, n_exposure)
     Fp_conv, Fstar_conv, wl_cube_model, wl_model = test_inputs
-    best_kp = 150
-    x_good = [150, 0, 0]
-    x_bad = [104, -20, -0.4]
+    best_kp = 192.06
+
+    x_good = [best_kp, 0, 0]
+    x_bad = [144, -50, -0.9]
     n_princ_comp = 4
     log_prob_good = log_prob(
         x_good,
diff --git a/src/scope/tests/test_run_simulation.py b/src/scope/tests/test_run_simulation.py
index 77dec66..74b8886 100644
--- a/src/scope/tests/test_run_simulation.py
+++ b/src/scope/tests/test_run_simulation.py
@@ -231,7 +231,7 @@ def test_baseline_outputs_take2(test_inputs):
         star=True,
         SNR=0,
         rv_semiamp_orbit=0.3229,
-        observation="emission",
+        observation="transmission",
         tell_type="data-driven",
         time_dep_tell=False,
         wav_error=False,