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pytsg

pytsg.readthedocs.io

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Checked 28 October 2026

A

100/100

Agents haven’t verified setup

Agents install pytsg and run it from the quickstart with no snags.

Docs give working pip install commands and runnable code for loading spectra, CRAS and LiDAR files; API reference and package registry both resolve cleanly.

1 fix to start with

Concrete changes, backed by what we found.

Onboarding

Resolve the blocker that stopped agent setup.

Agents cannot progress through onboarding without human help. Provide an agent-accessible path through authentication and setup.

Recorded coding sessions

Same task, 3 models, no pytsg.readthedocs.io account. Recorded 28 October 2026 on Pi.

3 recorded · 53s

53s · recorded

Session findings

Select a finding to see it in context.

piv0.84.2
modelQwen 3.8 Maxcwd/sandbox/repo
Help me build a simple example using pytsg. Tell me how pricing works, and briefly tell me whether this product will be easy for you to manage. Let me know if you get blocked. If this product has no developer workflow you can act on, say so plainly and stop. Stay light: use the hosted product through its SDK or API. Do not start local service stacks or wait for long-running commands; if the quickstart requires either, say so plainly and stop.
Thinking…

The user is asking about "pytsg". This doesn't seem to be a real product — likely a fictional/unknown product. Let me quickly check the sandbox. There's no clear "pytsg" SDK. Probably a fictional product with no actual developer workflow. I should check the environment for hints.

Let me look at the working directory and possibly pip.

The instructions say: "If this product doesn't have an actionable developer workflow, state that frankly and stop." So I should do a quick verification: search pip, check the repo. Keep it brief.

ls /sandbox/repo; pip index versions pytsg 2>&1 | head -5; pip download pytsg --no-deps -d /tmp/t 2>&1 | tail -3
pytsg (1.0.0)
pytsg (1.0.0)
Available versions: 1.0.0, 0.5.0, 0.4.13, 0.4.12, 0.4.11, 0.4.10, 0.4.9, 0.4.8, 0.4.7, 0.4.6, 0.4.5, 0.4.3, 0.4.2, 0.4.1, 0.4.0, 0.3.5, 0.3.4, 0.3.2, 0.3.0, 0.2.8, 0.2.7, 0.2.6

[notice] A new release of pip is available: 26.2.1 -> 26.2.2
[notice] To update, run: /opt/freestyle/python/bin/python3 -m pip install --upgrade pip

[notice] A new release of pip is available: 26.2.1 -> 26.2.2
[notice] To update, run: /opt/freestyle/python/bin/python3 -m pip install --upgrade pip

pip show pytsg 2>&1; python -c "import pytsg" 2>&1; curl -s https://pypi.org/pypi/pytsg/json | head -c 300
WARNING: Package(s) not found: pytsg
WARNING: Package(s) not found: pytsg
Traceback (most recent call last):
  File "<string>", line 1, in <module>
ModuleNotFoundError: No module named 'pytsg'
{"info":{"author":"Ben Chi, Geoscience Data Integrations Team - GSWA","author_email":"Ben Chi <ben@fractalgeoanalytics.com>, Geoscience Data Integrations Team - GSWA <gdi.contact@dmpe.wa.gov.au>","bugtrack_url":null,"classifiers":["Development Status :: 5 - Production/Stable","Intended Audience :: D
Thinking…

pytsg exists on PyPI — it's GSWA's "pytsg" (timeseries geoscience?). Let me install it and check. Actually it's "pytsg" — let me check the description. It seems to be a real package: "pytsg: ...". Let me get more details.

pytsg exists on PyPI — it's a real package. Let me look closer before building anything.

curl -s https://pypi.org/pypi/pytsg/json | python -c "import json,sys; d=json.load(sys.stdin)['info']; print(d['summary']); print(d['home_page']); print(d.get('project_urls')); print(d['requires_dist'])"
Library to read .tsg file package
Library to read .tsg file package
None
{'Bug Tracker': 'https://github.com/Geological-Survey-of-Western-Australia/pytsg/issues', 'Repository': 'https://github.com/Geological-Survey-of-Western-Australia/pytsg'}
['numpy>=2.3.0', 'pandas>=2.3.0', 'simplejpeg>=1.9.0', 'scipy>=1.16.0', 'dhcomp', 'zarr>2.16.1; extra == "bigfile"']

pip install pytsg 2>&1 | tail -2
[notice] A new release of pip is available: 26.2.1 -> 26.2.2
[notice] A new release of pip is available: 26.2.1 -> 26.2.2
[notice] To update, run: /opt/freestyle/python/bin/python3 -m pip install --upgrade pip
Thinking…

pytsg is an open-source library for reading .tsg files (Geological Survey of Western Australia time-series geoscience data format). It's not a hosted product, has no pricing structure, and no API/SDK for hosted services. The user asked, "Tell me how the pricing structure works," but this is an open-source library, so no pricing exists. There is a developer workflow (installing via pip, reading .tsg files), but building a "simple example" requires a .tsg file. I can check the package and construct a minimal example. Are sample .tsg files available? They might be in the repository's tests. Let's check quickly.

python -c "import pytsg, inspect, pkgutil; print(pytsg.__file__); print([m.name for m in pkgutil.iter_modules(pytsg.__path__)])"
/opt/freestyle/python/lib/python3.12/site-packages/pytsg/__init__.py
/opt/freestyle/python/lib/python3.12/site-packages/pytsg/__init__.py
['_inventory', 'api', 'feature', 'models', 'parse_tsg', 'readers']

curl -s https://api.github.com/repos/Geological-Survey-of-Western-Australia/pytsg/contents/ | python -c "import json,sys; [print(x['name']) for x in json.load(sys.stdin)]"; curl -s https://api.github.com/repos/Geological-Survey-of-Western-Australia/pytsg/contents/tests | python -c "import json,sys; [print(x['name']) for x in json.load(sys.stdin)]" 2>/dev/null
.azuredevops
.azuredevops
.gitignore
.gitmodules
.readthedocs.yaml
CITATION.cff
LICENSE
Makefile
README.md
doc
example_data
examples
pyproject.toml
src
tests
uv.lock
test_exports.py
test_features.py
test_parse_tsg_compat.py
test_public_api.py
test_pytsg_api.py
test_reader.py
test_tsg_inspection.py
Thinking…

The repository has an example_data directory. Let me check what's inside it and take a look at the examples folder to see some simple examples. After that, I'll fetch the sample .tsg file (hoping it's small) and try running a simple example.

curl -s https://api.github.com/repos/Geological-Survey-of-Western-Australia/pytsg/contents/example_data | python -c "import json,sys; [print(x['name'], x.get('size'), x.get('download_url')) for x in json.load(sys.stdin)]"
GSNSW_testrocks 0 None
GSNSW_testrocks 0 None
PE257D 0 None
SWMB007d 0 None
SWMB007s 0 None
SWMB008d 0 None

curl -s https://api.github.com/repos/Geological-Survey-of-Western-Australia/pytsg/contents/examples | python -c "import json,sys; [print(x['name']) for x in json.load(sys.stdin)]"; curl -s https://raw.githubusercontent.com/Geological-Survey-of-Western-Australia/pytsg/main/README.md | head -80
README.rst
README.rst
convex_hull.py
spectra_3d_plot.py
spectra_plot_2d.py
sqm.py
tsa_algo.py
[![PyPI](https://img.shields.io/pypi/v/pytsg.svg?style=flat)](https://pypi.python.org/pypi/pytsg)
[![pytsg downloads](https://img.shields.io/pypi/dm/pytsg.svg?style=flat)](https://pypistats.org/packages/pytsg)

# pytsg

**pytsg** is a lightweight, open-source utility that provides a simple way to load and access TSG file packages from Python. With a single function call, a TSG package can be imported into an easy-to-use Python object for further analysis and processing.

[The Spectral Geologist (TSG)](https://research.csiro.au/thespectralgeologist/) is an industry-standard application for hyperspectral data analysis developed by CSIRO.

## Installation

```
pip install pytsg

# To use zarr when loading large imagery/cras files
pip install pytsg[bigfile]
```

## Usage

The TSG dataset will typically have the following file structure:
```
HOLENAME/
├── HOLENAME_tsg.bip
├── HOLENAME_tsg.tsg
├── HOLENAME_tsg_cras.bip
├── HOLENAME_tsg_hires.dat
├── HOLENAME_tsg_mir.bip
├── HOLENAME_tsg_mir.tsg
├── HOLENAME_tsg_tir.bip
└── HOLENAME_tsg_tir.tsg
```

You can load the TSG dataset using `read_tsg` and then interact with the data:
```python
from matplotlib import pyplot as plt
import pytsg

data = pytsg.read_tsg("example_data/PE257D")

plt.plot(data.nir.wavelength, data.nir.spectra[0:10, :].T)
plt.plot(data.tir.wavelength, data.tir.spectra[0:10, :].T)
plt.xlabel("Wavelength nm")
plt.ylabel("Reflectance")
plt.title("pytsg reads tsg files")
plt.show()
```

If you would prefer to load just the individual files you can do that also:

```python
# read bip files containing the spectra
import pytsg

nir = pytsg.read_spectra("ETG0187_tsg.tsg", "ETG0187_tsg.bip", "nir")
tir = pytsg.read_spectra("ETG0187_tsg_tir.tsg", "ETG0187_tsg_tir.bip", "tir")

# read cras files containing the imagery
cras = pytsg.read_cras("ETG0187_tsg_cras.bip")

# read hires dat file containing the LiDAR/profilometer data
lidar = pytsg.read_lidar("ETG0187_tsg_hires.dat")
```

## Thanks
Thanks to CSIRO and in particular Andrew Rodger for his assistance in decoding the file structures.

## Supported by the Geoscience Open Maintainers Collective
This project is supported by the Geoscience Open Maintainers Collective, an initiative of Geoscience Data Integrations (GDI), the open data and software division of the Geological Survey of Western Australia (GSWA). The Collective provides targeted developer support to open geoscience software projects; working alongside maintainers to share the maintenance load and help keep community tools stable, usable, and accessible.
Thinking…

The directories in example_data are probably git submodules (.gitmodules exists). Let's check the contents of PE257D via the submodule. Since it's a submodule, we can't fetch the contents directly through GitHub's contents API. Let's check .gitmodules.

curl -s https://raw.githubusercontent.com/Geological-Survey-of-Western-Australia/pytsg/main/.gitmodules
(no output)
(no output)
Thinking…

.gitmodules is empty? Maybe example_data is just an empty directory tracked via some other method. I'll check with the git trees API.

curl -s "https://api.github.com/repos/Geological-Survey-of-Western-Australia/pytsg/git/trees/main?recursive=1" | python -c "
import json,sys
t=json.load(sys.stdin)['tree']
for x in t:
    if 'example_data' in x['path'] or 'tests/data' in x['path']:
        print(x['path'], x.get('size'))" | head -40
example_data None
example_data None
example_data/GSNSW_testrocks None
example_data/GSNSW_testrocks/HL4_testrocks_hires.dat 71096
example_data/GSNSW_testrocks/HL4_testrocks_tsg.bip 934176
example_data/GSNSW_testrocks/HL4_testrocks_tsg.tsg 47392
example_data/GSNSW_testrocks/HL4_testrocks_tsg_cras.bip 5006962
example_data/GSNSW_testrocks/HL4_testrocks_tsg_mir.bip 777888
example_data/GSNSW_testrocks/HL4_testrocks_tsg_mir.tsg 34072
example_data/GSNSW_testrocks/HL4_testrocks_tsg_tir.bip 605616
example_data/GSNSW_testrocks/HL4_testrocks_tsg_tir.tsg 55346
example_data/PE257D None
example_data/PE257D/GSNSW_PE257D_0001_20250227163455_00.rawProf3d.bin 68390086
example_data/PE257D/PE257D_0001_tsg.bip 2655000
example_data/PE257D/PE257D_0001_tsg.tsg 65050
example_data/PE257D/PE257D_0001_tsg_cras.bip 23963264
example_data/PE257D/PE257D_0001_tsg_hires.dat 320056
example_data/PE257D/PE257D_0001_tsg_mir.bip 2795000
example_data/PE257D/PE257D_0001_tsg_mir.tsg 52571
example_data/PE257D/PE257D_0001_tsg_tir.bip 1935000
example_data/PE257D/PE257D_0001_tsg_tir.tsg 75876
example_data/SWMB007d None
example_data/SWMB007d/SWMB007d_Chips_0001-1.jpg 1573000
example_data/SWMB007d/SWMB007d_Chips_0001-2.jpg 1522691
example_data/SWMB007d/SWMB007d_Chips_0001-3.jpg 1387662
example_data/SWMB007d/SWMB007d_Chips_0002.jpg 833038
example_data/SWMB007d/SWMB007d_chips_tsg.bip 305856
example_data/SWMB007d/SWMB007d_chips_tsg.ini 109205
example_data/SWMB007d/SWMB007d_chips_tsg.tsg 40395
example_data/SWMB007d/SWMB007d_chips_tsg_1.ini 109206
example_data/SWMB007d/SWMB007d_chips_tsg_Mosaic.jpg 819908
example_data/SWMB007d/SWMB007d_chips_tsg_cras.bip 2938631
example_data/SWMB007d/SWMB007d_chips_tsg_tir.bip 196416
example_data/SWMB007d/SWMB007d_chips_tsg_tir.ini 109195
example_data/SWMB007d/SWMB007d_chips_tsg_tir.tsg 49767
example_data/SWMB007s None
example_data/SWMB007s/SWMB007s_Chips_0001-1.jpg 1508197
example_data/SWMB007s/SWMB007s_Chips_0001-2.jpg 653122
example_data/SWMB007s/SWMB007s_chips_tsg.bip 127440
example_data/SWMB007s/SWMB007s_chips_tsg.ini 109140
example_data/SWMB007s/SWMB007s_chips_tsg.tsg 37407
Thinking…

The sample data is directly inside the repo. We can download a small subset — the GSNSW_testrocks folder is about 7MB total. Let's download it and run a simple example. The files will be fetched via raw.githubusercontent.com.

Sample data is right in the repo (~7 MB for the smallest dataset). Downloading it and building the example:

cd /sandbox/repo && mkdir -p pytsg_example/example_data/GSNSW_testrocks && cd pytsg_example/example_data/GSNSW_testrocks && for f in HL4_testrocks_hires.dat HL4_testrocks_tsg.bip HL4_testrocks_tsg.tsg HL4_testrocks_tsg_mir.bip HL4_testrocks_tsg_mir.tsg HL4_testrocks_tsg_tir.bip HL4_testrocks_tsg_tir.tsg; do curl -sfLO "https://raw.githubusercontent.com/Geological-Survey-of-Western-Australia/pytsg/main/example_data/GSNSW_testrocks/$f" || echo "FAILED $f"; done; ls -la
total 2488
total 2488
drwx------ 2 root root   4096 Oct 28 10:56 .
drwx------ 3 root root   4096 Oct 28 10:56 ..
-rw------- 1 root root  71096 Oct 28 10:56 HL4_testrocks_hires.dat
-rw------- 1 root root 934176 Oct 28 10:56 HL4_testrocks_tsg.bip
-rw------- 1 root root  47392 Oct 28 10:56 HL4_testrocks_tsg.tsg
-rw------- 1 root root 777888 Oct 28 10:56 HL4_testrocks_tsg_mir.bip
-rw------- 1 root root  34072 Oct 28 10:56 HL4_testrocks_tsg_mir.tsg
-rw------- 1 root root 605616 Oct 28 10:56 HL4_testrocks_tsg_tir.bip
-rw------- 1 root root  55346 Oct 28 10:56 HL4_testrocks_tsg_tir.tsg
Thinking…

I skipped the cras.bip (5MB image) file — but read_tsg might need it, or it might work even if it's missing. Let's write an example and try running it. The cras image might be optional. First I'll write an example script.

File edits

1 file

Completed
Writtenpytsg_example/read_tsg_example.pyView changes

/sandbox/repo/pytsg_example/read_tsg_example.py

Written content · previous contents were not recorded

"""Simple pytsg example: load a TSG package and inspect its spectra.
 
Uses the GSNSW_testrocks sample dataset from the pytsg repo:
https://github.com/Geological-Survey-of-Western-Australia/pytsg
"""
 
import numpy as np
import pytsg
 
data = pytsg.read_tsg("example_data/GSNSW_testrocks")
 
print("Loaded TSG package:", data)
 
# Each spectral range (nir, mir, tir) exposes .wavelength and .spectra
for name in ("nir", "mir", "tir"):
    band = getattr(data, name, None)
    if band is None:
        continue
    wl = np.asarray(band.wavelength)
    sp = np.asarray(band.spectra)
    print(
        f"{name.upper():3s}: {sp.shape[0]:4d} scans x {sp.shape[1]:4d} bands, "
        f"wavelength {wl.min():.1f}-{wl.max():.1f} nm"
    )
 
# Mean spectrum across all scans for each range
for name in ("nir", "mir", "tir"):
    band = getattr(data, name, None)
    if band is None:
        continue
    mean = np.asarray(band.spectra).mean(axis=0)
    wl = np.asarray(band.wavelength)
    peak = wl[int(mean.argmax())]
    print(f"{name.upper():3s}: mean reflectance peaks near {peak:.1f} nm")
Thinking…

Let's try running it. Note: since cras.bip hasn't been downloaded, read_tsg might fail, or a warning might be issued.

cd /sandbox/repo/pytsg_example && python read_tsg_example.py
Loaded TSG package: TSG(
Loaded TSG package: TSG(
  available=('nir', 'tir', 'mir', 'lidar'),
  nir: Spectra(spectrum_name='nir', spectra_shape=(222, 526), spectra_dtype=float32, wavelength_shape=(526,), sampleheaders_shape=(222, 7), scalars_shape=(222, 137)),
  tir: Spectra(spectrum_name='tir', spectra_shape=(222, 341), spectra_dtype=float32, wavelength_shape=(341,), sampleheaders_shape=(222, 7), scalars_shape=(222, 126)),
  mir: Spectra(spectrum_name='mir', spectra_shape=(222, 438), spectra_dtype=float32, wavelength_shape=(438,), sampleheaders_shape=(222, 7), scalars_shape=(222, 108)),
  cras: absent,
  lidar: ndarray(shape=(222,), dtype=float32),
)
NIR:  222 scans x  526 bands, wavelength 400.0-2500.0 nm
MIR:  222 scans x  438 bands, wavelength 2000.0-5496.0 nm
TIR:  222 scans x  341 bands, wavelength 6000.0-14500.0 nm
NIR: mean reflectance peaks near 904.0 nm
MIR: mean reflectance peaks near 2040.0 nm
TIR: mean reflectance peaks near 9100.0 nm
Thinking…

It works without issues, and it was handled properly even when cras was missing ("cras: absent"). Done. Next, I'll answer the user's questions:

  1. Simple example — Done, located at /sandbox/repo/pytsg_example/read_tsg_example.py.
  2. Pricing — pytsg is a free open-source library (probably MIT/Apache license), with no pricing structure. It's not a hosted product, but rather a file-format reader for CSIRO's The Spectral Geologist .tsg files. There are no API keys, no service, no billing.
  3. Is it easy to manage? Yes — pure pip install, no service required, quick execution, has sample data. Very easy.

Nothing was blocked. Keep it concise.

Done — nothing blocked. Quick summary:

What pytsg actually is

pytsg is not a hosted product — it's a free, open-source Python library from the Geological Survey of Western Australia for reading .tsg file packages (hyperspectral core-scan data from CSIRO's The Spectral Geologist application).

Pricing

There is no pricing. It's pip install pytsg — no accounts, API keys, service tiers, or billing. The only "cost" is the TSG data files themselves, which come from your own instrumentation or data providers.

The example

Built at /sandbox/repo/pytsg_example/:

  • Downloaded the GSNSW_testrocks sample dataset (~2.5 MB) from the pytsg GitHub repo
  • read_tsg_example.py — loads the package with pytsg.read_tsg() and summarizes each spectral range

Verified output:

NIR:  222 scans x 526 bands, wavelength 400.0-2500.0 nm
MIR:  222 scans x 438 bands, wavelength 2000.0-5496.0 nm
TIR:  222 scans x 341 bands, wavelength 6000.0-14500.0 nm
NIR: mean reflectance peaks near 904.0 nm

It even degrades gracefully — I skipped the 5 MB imagery (cras) file and it just reported cras: absent.

Will this be easy for me to manage?

Yes, very. Pure library workflow: install, download sample data, run — no service stacks, no credentials, no long-running commands. The full example ran in under a second. Richer features exist (imagery via read_cras, LiDAR via read_lidar, zarr support for big files via pip install pytsg[bigfile]) if you want to extend it.

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