initial commit

.gitignore

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+__pycache__
+poetry.lock

README.md

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+# ss-downloader
+
+Install poetry & Python 3.8+
+
+```
+curl -sSL https://raw.githubusercontent.com/python-poetry/poetry/master/get-poetry.py | python -
+```
+
+## how to use
+
+```
+source load-env.sh
+poetry run python list.py
+poetry run python download.py
+```
+
+## how this was done
+
+```
+poetry-new init
+poetry add ssgetpy
+```
+
+```
+poetry install
+```

datasets.py

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+import collections
+
+import ssgetpy
+
+Dataset = collections.namedtuple("Dataset", ["name", "mats"])
+
+
+def filter_reject_blacklist(mats):
+    filtered = []
+    for mat in mats:
+        if mat.name.endswith("_b"):
+            continue
+        filtered += [mat]
+    return filtered
+
+def filter_reject_large(mats):
+    filtered = []
+    for mat in mats:
+        if mat.rows > 1_000_000 or mat.cols > 1_000_000 or mat.nnz > 20_000_000:
+            continue
+        filtered += [mat]
+    return filtered
+
+def filter_reject_small(mats):
+    filtered = []
+    for mat in mats:
+        if mat.rows < 1_000 or mat.cols < 1_000 or mat.nnz < 20_000:
+            continue
+        filtered += [mat]
+    return filtered
+
+## all real-valued matrices
+REAL_MATS = Dataset(
+    name = "all_reals",
+    mats = filter_reject_blacklist(ssgetpy.search(
+        dtype='real',
+        limit=1_000_000
+    ))
+)
+
+## certain matrices with regular structure 
+kinds = [
+    "2D/3D",
+    "Acoustics Problem",
+    "Materials Problem",
+    "Structural Problem",
+    "Computational Fluid Dynamics Problem",
+    "Model Reduction Problem",
+    "Semiconductor Device Problem",
+    "Theoretical/Quantum Chemistry Problem",
+    "Thermal Problem",
+]
+REGULAR_REAL_MATS = Dataset(
+    name = "regular_reals",
+    mats = []
+)
+mats = []
+for kind in kinds:
+    mats += ssgetpy.search(
+        kind=kind,
+        dtype='real',
+        limit=1_000_000
+    )
+REGULAR_REAL_MATS = Dataset(
+    name="regular_reals",
+    mats = filter_reject_blacklist(mats)
+)
+
+## keep "small" matrices
+REGULAR_REAL_SMALL_MATS = Dataset (
+    name = "regular_reals_small",
+    mats = filter_reject_large(REGULAR_REAL_MATS.mats)
+)
+REAL_SMALL_MATS = Dataset (
+    name = "reals_small",
+    mats = filter_reject_large(REAL_MATS.mats)
+)
+
+## keep "medium" matrices
+REGULAR_REAL_MED_MATS = Dataset (
+    name = "regular_reals_med",
+    mats = filter_reject_large(filter_reject_small(REGULAR_REAL_MATS.mats))
+)
+REAL_MED_MATS = Dataset (
+    name = "reals_med",
+    mats = filter_reject_large(filter_reject_small(REAL_MATS.mats))
+)
+
+## export all datasets
+DATASETS  = [
+    REAL_MATS,
+    REAL_SMALL_MATS,
+    REAL_MED_MATS,
+    REGULAR_REAL_MATS,
+    REGULAR_REAL_SMALL_MATS,
+    REGULAR_REAL_MED_MATS
+]

download.py

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+import os
+from pathlib import Path
+import sys
+
+import datasets
+
+mats = datasets.ALL_REAL_MATS
+
+print(len(mats))
+
+scratchPath = Path(os.environ["SCRATCH"])
+downPath = scratchPath / "suitesparse"
+print("ensure", downPath)
+try:
+    os.makedirs(downPath)
+except FileExistsError:
+    pass # dir already exists
+
+for mat in mats:
+
+    print(mat.name)
+
+    if os.path.exists(downPath / mat.name / (mat.name + ".mtx")):
+        print(f"skipping {mat.name}: already exists")
+        continue
+
+    mat.download(format='MM', destpath=downPath, extract=True)
+
+    # TODO: check download for a type that is not 'real' and remove if so
+
+    # TODO: check for non-coordinate and remove, if so
+
+    # many mats include rhs/whatever in extracted. toss that.
+    files = os.listdir(downPath / mat.name)
+    for f in files:
+        if f != (mat.name + ".mtx"):
+            print("DELETE ", f)
+            os.remove(downPath / mat.name / f)
+
+    files = os.listdir(downPath / mat.name)
+    if len(files) == 0:
+        os.rmdir(downPath / mat.name)
+
+
+# blacklist:
+# cavity(\d+)_[bx].mtx
+# circuit(\d+)_[bx].mtx
+# other things that end in _b.mtx?
+#

list.py

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+import datasets
+
+for ds in datasets.DATASETS:
+    print(f"{ds.name}: {len(ds.mats)} matrices")

load-env.sh

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+#! /bin/bash
+
+host=`hostname`
+
+if [[ "$NERSC_HOST" == cori ]]; then
+    echo \$NERSC_HOST matched cori
+    module load cray-python/3.8.5.0
+
+    which python
+elif [[ "$NERSC_HOST" == perlmutter ]]; then
+    echo \$NERSC_HOST matched perlmutter
+
+    module load cray-python/3.9.4.1
+
+    which python
+fi
+

pyproject.toml

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+[tool.poetry]
+name = "ss-downloader"
+version = "0.1.0"
+description = ""
+authors = ["Carl Pearson <cwpears@sandia.gov>"]
+
+[tool.poetry.dependencies]
+python = "^3.8"
+ssgetpy = "^1.0rc2"
+
+[tool.poetry.dev-dependencies]
+
+[build-system]
+requires = ["poetry-core>=1.0.0"]
+build-backend = "poetry.core.masonry.api"