diff --git a/pipelines/iteration_helpers/loop_fit.sh b/pipelines/iteration_helpers/loop_fit.sh
deleted file mode 100755
index 837d5cf0..00000000
--- a/pipelines/iteration_helpers/loop_fit.sh
+++ /dev/null
@@ -1,17 +0,0 @@
-#!/bin/bash
-
-# Check if the base directory is provided as an argument
-if [ -z "$1" ]; then
-    echo "Usage: $0 <base_dir>"
-    exit 1
-fi
-
-# Base directory containing subdirectories
-BASE_DIR="$1"
-
-# Iterate over each subdirectory in the base directory
-for SUBDIR in "$BASE_DIR"/*/; do
-    # Run the Python script with the current subdirectory as the model_dir argument
-    echo "$SUBDIR"
-    python fit_model.py "$SUBDIR"
-done
diff --git a/pipelines/iteration_helpers/loop_generate_predictive.sh b/pipelines/iteration_helpers/loop_generate_predictive.sh
deleted file mode 100755
index b2510d21..00000000
--- a/pipelines/iteration_helpers/loop_generate_predictive.sh
+++ /dev/null
@@ -1,18 +0,0 @@
-#!/bin/bash
-
-# Check if the base directory is provided as an argument
-if [ -z "$1" ]; then
-    echo "Usage: $0 <base_dir>"
-    exit 1
-fi
-
-# Base directory containing subdirectories
-BASE_DIR="$1"
-
-
-# Iterate over each subdirectory in the base directory
-for SUBDIR in "$BASE_DIR"/*/; do
-    # Run the Python script with the current subdirectory as the model_dir argument
-    echo "$SUBDIR"
-    python generate_predictive.py "$SUBDIR" --n-forecast-points 28
-done
diff --git a/pipelines/iteration_helpers/loop_postprocess.sh b/pipelines/iteration_helpers/loop_postprocess.sh
deleted file mode 100755
index 22603452..00000000
--- a/pipelines/iteration_helpers/loop_postprocess.sh
+++ /dev/null
@@ -1,18 +0,0 @@
-#!/bin/bash
-
-# Check if the base directory is provided as an argument
-if [ -z "$1" ]; then
-    echo "Usage: $0 <base_dir>"
-    exit 1
-fi
-
-# Base directory containing subdirectories
-BASE_DIR="$1"
-
-# Iterate over each subdirectory in the base directory
-for SUBDIR in "$BASE_DIR"/*/; do
-    # Run the R script with the current subdirectory as the model_dir argument
-    echo "$SUBDIR"
-    Rscript convert_inferencedata_to_parquet.R "$SUBDIR"
-    Rscript postprocess_state_forecast.R "$SUBDIR"
-done
diff --git a/pipelines/iteration_helpers/loop_score.sh b/pipelines/iteration_helpers/loop_score.sh
deleted file mode 100755
index 6ead92cb..00000000
--- a/pipelines/iteration_helpers/loop_score.sh
+++ /dev/null
@@ -1,17 +0,0 @@
-#!/bin/bash
-
-# Check if the base directory is provided as an argument
-if [ -z "$1" ]; then
-    echo "Usage: $0 <base_dir>"
-    exit 1
-fi
-
-# Base directory containing subdirectories
-BASE_DIR="$1"
-
-# Iterate over each subdirectory in the base directory
-for SUBDIR in "$BASE_DIR"/*/; do
-    # Run the R script with the current subdirectory as the model_dir argument
-    echo "$SUBDIR"
-    Rscript score_forecast.R "$SUBDIR"
-done
diff --git a/pipelines/tests/test_run.sh b/pipelines/tests/test_run.sh
deleted file mode 100644
index 50258803..00000000
--- a/pipelines/tests/test_run.sh
+++ /dev/null
@@ -1,50 +0,0 @@
-#!/bin/bash
-
-# Check if the base directory is provided as an argument
-if [ -z "$1" ]; then
-    echo "Usage: $0 <base_dir>"
-    exit 1
-fi
-
-# Base directory containing subdirectories
-BASE_DIR="$1"
-N_SAMPLES=$2
-N_AHEAD=$3
-
-# Iterate over each subdirectory in the base directory
-echo "TEST-MODE: Running loop over subdirectories in $BASE_DIR"
-echo "For $N_SAMPLES samples on 1 chain, and $N_AHEAD forecast points"
-echo ""
-for SUBDIR in "$BASE_DIR"/*/; do
-    echo "TEST-MODE: Inference for $SUBDIR"
-    python fit_model.py "$SUBDIR" --n-chains 1 --n-samples $N_SAMPLES
-    echo "TEST-MODE: Finished inference"
-    echo ""
-    echo "TEST-MODE: Generating posterior predictions for $SUBDIR"
-    python generate_predictive.py "$SUBDIR" --n-forecast-points $N_AHEAD
-    echo "TEST-MODE: Finished generating posterior predictions"
-    echo ""
-    echo "TEST-MODE: Converting inferencedata to parquet for $SUBDIR"
-    Rscript convert_inferencedata_to_parquet.R "$SUBDIR"
-    echo "TEST-MODE: Finished converting inferencedata to parquet"
-    echo ""
-    echo "TEST-MODE: Generate epiweekly data for $SUBDIR"
-    Rscript generate_epiweekly.R "$SUBDIR"
-    echo "TEST-MODE: Finished generating epiweekly data"
-    echo ""
-    echo "TEST-MODE: Forecasting baseline models for $SUBDIR"
-    Rscript timeseries_forecasts.R "$SUBDIR" --n-forecast-days $N_AHEAD --n-samples $N_SAMPLES
-    echo "TEST-MODE: Finished forecasting baseline models"
-    echo ""
-    echo "TEST-MODE: Postprocessing state forecast for $SUBDIR"
-    Rscript postprocess_state_forecast.R "$SUBDIR"
-    echo "TEST-MODE: Finished postprocessing state forecast"
-    echo ""
-    echo "TEST-MODE: Rendering webpage for $SUBDIR"
-    Rscript render_webpage.R "$SUBDIR"
-    echo "TEST-MODE: Finished rendering webpage"
-    echo ""
-    echo "TEST-MODE: Scoring forecast for $SUBDIR"
-    Rscript score_forecast.R "$SUBDIR"
-    echo "TEST-MODE: Finished scoring forecast"
-done