fix numpy dependency

PolusAI · Nov 20, 2024 · 8154d6d · 8154d6d
1 parent 600f409
commit 8154d6d
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Showing 4 changed files with 3 additions and 4 deletions.
diff --git a/transforms/tabular-thresholding-tool/Dockerfile b/transforms/tabular-thresholding-tool/Dockerfile
@@ -1,4 +1,4 @@
-FROM polusai/bfio:2.3.6
+FROM polusai/bfio:2.4.5
 
 # environment variables defined in polusai/bfio
 ENV EXEC_DIR="/opt/executables"
@@ -19,7 +19,6 @@ COPY . ${EXEC_DIR}/tabular-tools
 # Install the tool
 RUN pip3 install "${EXEC_DIR}/tabular-tools/${TOOL_DIR}" --no-cache-dir
 
-# Set the entrypoint
 # TODO: Change the entrypoint to the tool entrypoint
 ENTRYPOINT ["python3", "-m", "polus.tabular.transforms.tabular_thresholding"]
 CMD ["--help"]
diff --git a/transforms/tabular-thresholding-tool/pyproject.toml b/transforms/tabular-thresholding-tool/pyproject.toml
@@ -16,6 +16,7 @@ typer = "^0.7.0"
 tqdm = "^4.64.1"
 vaex = "^4.17.0"
 pyarrow = ">=16.0,<17.0"
+numpy = "1.26.4"
 
 
 [tool.poetry.group.dev.dependencies]

diff --git a/...s/tabular-thresholding-tool/src/polus/tabular/transforms/tabular_thresholding/__main__.py b/...s/tabular-thresholding-tool/src/polus/tabular/transforms/tabular_thresholding/__main__.py
@@ -91,7 +91,6 @@ def main(  # noqa:PLR0913
     logger.info(f"falsePositiverate = {false_positive_rate}")
     logger.info(f"numBins = {num_bins}")
     logger.info(f"n = {n}")
-    logger.info(f"outFormat = {out_format}")
 
     inp_dir = inp_dir.resolve()
     out_dir = out_dir.resolve()

diff --git a/...resholding-tool/src/polus/tabular/transforms/tabular_thresholding/tabular_thresholding.py b/...resholding-tool/src/polus/tabular/transforms/tabular_thresholding/tabular_thresholding.py
@@ -16,7 +16,7 @@
 
 logger = logging.getLogger(__name__)
 
-POLUS_TAB_EXT = os.environ.get("POLUS_TAB_EXT", ".arrow")
+POLUS_TAB_EXT = os.environ.get("POLUS_TAB_EXT", ".csv")
 
 
 class Methods(str, enum.Enum):