first-breaks-picking 0.0.1__tar.gz

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first-breaks-picking-0.0.1/PKG-INFO

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+Metadata-Version: 2.1
+Name: first-breaks-picking
+Version: 0.0.1
+Summary: Tool for picking first breaks in seismic gather
+Home-page: https://github.com/DaloroAT/first_breaks_picking
+Author: Aleksei Tarasov
+Author-email: aleksei.v.tarasov@gmail.com
+License: Apache License 2.0
+Project-URL: Homepage, https://github.com/DaloroAT/first_breaks_picking
+Keywords: seismic,first-breaks,computer-vision,deep-learning,segmentation,data-science
+Classifier: Environment :: Console
+Classifier: Environment :: X11 Applications :: Qt
+Classifier: Operating System :: OS Independent
+Classifier: License :: OSI Approved :: Apache Software License
+Classifier: Intended Audience :: Developers
+Classifier: Intended Audience :: Science/Research
+Classifier: Topic :: Scientific/Engineering :: Artificial Intelligence
+Classifier: Topic :: Scientific/Engineering :: Image Recognition
+Classifier: Programming Language :: Python
+Classifier: Programming Language :: Python :: 3.7
+Classifier: Programming Language :: Python :: 3.8
+Classifier: Programming Language :: Python :: 3.9
+Classifier: Programming Language :: Python :: 3.10
+Requires-Python: >=3.7,<4.0
+Description-Content-Type: text/markdown
+License-File: LICENSE
+
+# First breaks picking
+This project is devoted to pick waves that are the first to be detected on a seismogram (first breaks, first arrivals).
+Traditionally, this procedure is performed manually. When processing field data, the number of picks reaches hundreds of
+thousands. Existing analytical methods allow you to automate picking only on high-quality data with a high
+signal / noise ratio. 
+
+As a more robust algorithm, it is proposed to use a neural network to pick the first breaks. Since the data on adjacent
+seismic traces have similarities in the features of the wave field, **we pick first breaks on 2D seismic gather**, not 
+individual traces.
+
+![](docs/images/intro_small.PNG)
+
+# Installation
+
+Library is available in PyPI:
+```shell
+pip install -U first-breaks-picking
+```
+
+### Extra data
+
+- To pick first breaks you need 
+to [download model](https://oml.daloroserver.com/download/seis/fb.onnx). 
+
+- If you have no seismic data, you can also 
+[download small SGY file](https://raw.githubusercontent.com/DaloroAT/first_breaks_picking/main/data/real_gather.sgy).
+
+It's also possible to download them with Python using the following snippet:
+
+```python
+from first_breaks.utils.utils import (download_demo_sgy, 
+                                      download_model_onnx)
+
+sgy_filename = 'data.sgy'
+model_filename = 'model.onnx'
+
+download_demo_sgy(sgy_filename)
+download_model_onnx(model_filename)
+```
+
+# How to use it
+
+The library can be used in Python, or you can use the desktop application. The former has more flexibility for 
+building your own picking scenario and processing multiple files. The difference between the latter is that it 
+allows you to work interactively with only one file and has better performance in visualization.
+
+
+### Create SGY
+We provide several ways to create `SGY` object: from file, `bytes` or `numpy` array. 
+
+From file:
+```python
+from first_breaks.sgy.reader import SGY
+
+sgy_filename = ...  # put path to your file. 
+sgy = SGY(sgy_filename)
+```
+
+From `bytes`:
+```python
+from first_breaks.sgy.reader import SGY
+
+sgy_filename = ...  # put path to your file. 
+
+with open(sgy_filename, 'rb') as fin:
+    sgy_bytes = fin.read()
+
+sgy = SGY(sgy_bytes)
+```
+
+From `numpy` array:
+```python
+import numpy as np
+from first_breaks.sgy.reader import SGY
+
+num_samples = 1000
+num_traces = 48
+dt_mcs = 1e3
+
+traces = np.random.random((num_samples, num_traces))
+sgy = SGY(traces, dt_mcs=dt_mcs)
+```
+
+#### Content of SGY 
+
+Created `SGY` allows you to read traces, get observation parameters and view headers (empty if created from `numpy`)
+
+```python
+from first_breaks.sgy.reader import SGY
+
+sgy: SGY = ...  # put here previously created SGY
+
+# get all traces or specific traces limited by time
+all_traces = sgy.read()
+block_of_data = sgy.read_traces_by_ids(ids=[1, 2, 3, 10],
+                                       min_sample=100,
+                                       max_sample=500)
+
+# number of traces, values are the same
+print(sgy.num_traces, sgy.ntr)
+# number of time samples, values are the same
+print(sgy.num_samples, sgy.ns) 
+# = (ns, ntr)
+print(sgy.shape)
+# time discretization, in mcs, in mcs, in ms
+print(sgy.dt, sgy.dt_mcs, sgy.dt_ms)
+
+# dict with headers in the first 3600 bytes of the file
+print(sgy.general_headers)
+# pandas DataFrame with headers for each trace
+print(sgy.traces_headers.head())
+```
+
+### Create task for picking
+
+Next, we create a task for picking and pass the picking parameters to it. They have default values, but for the 
+best quality, they must be matched to specific data. You can use the desktop application to evaluate the parameters.
+A detailed description of the parameters can be found  in the following chapters.
+
+```python
+from first_breaks.sgy.reader import SGY
+from first_breaks.picking.task import Task
+
+sgy: SGY = ...  # put here previously created SGY
+task = Task(sgy, 
+            traces_per_gather=24,
+            maximum_time=200)
+```
+
+### Pick first breaks
+
+In this step, we use the neural network for picking. If you downloaded the model according to the installation section, 
+then pass the path to it. Or leave the path to the model empty so that we can download it automatically.
+
+```python
+from first_breaks.picking.task import Task
+from first_breaks.picking.picker import PickerONNX
+
+task: Task = ...  # put here previously created task
+picker = PickerONNX()
+task = picker.process_task(task)
+
+# we can see results of picking
+print(task.picks_in_samples)
+print(task.picks_in_ms)
+print(task.confidence)
+```
+
+
+
+
+
+
+[//]: # (- We can create it from `numpy` array.)
+
+# Picking process
+
+Neural network process file as series of **images**. There is why **the traces should not be random**,
+since we are using information about adjacent traces.
+
+
+To obtain the first breaks we do the following steps:
+1) Read all traces in the file.
+![All traces](docs/images/full.png)
+2) Limit time range by `Maximum time`. 
+![Limited by time](docs/images/tm_100.png)
+3) Split the sequence of traces into independent gathers of lengths `Traces per gather` each. 
+![Splitted file](docs/images/tm_100_tr_24_24_24_24.png)
+4) Apply trace modification on the gathers level if necessary (`Gain`, `Clip`, etc). 
+5) Calculate first breaks for individual gathers independently.
+![Picked shots](docs/images/tm_100_tr_24_24_24_24_picks.png)
+6) Join the first breaks of individual gathers.
+![Picked file](docs/images/tm_100_picks.png)
+
+To achieve the best result, you need to modify the picking parameters.
+
+### Traces per gather
+
+`Traces per gather` is the most important parameter for picking. The parameter defines how we split the sequence of 
+traces into individual gathers. 
+
+Suppose we need to process a file with 96 traces. Depending on the value of `Traces per gather` parameter, we will 
+process it as follows:
+- `Traces per gather` = 24. We will process 4 gathers with 24 traces each. 
+![4 full shots](docs/images/tm_100_tr_24_24_24_24.png)
+- `Traces per gather` = 48. We will process 2 gathers with 48 traces each.
+![2 full shots](docs/images/tm_100_tr_48_48.png)
+- `Traces per gather` = 40. We will process 2 gathers with 40 traces each and 1 gather with the remaining 16 traces. 
+The last gather will be interpolated from 16 to 40 traces. 
+![2 full + 1 interpolated shots](docs/images/tm_100_tr_40_40_16.png)
+
+### Maximum time
+
+You can localize the area for finding first breaks. Specify `Maximum time` if you have long records but the first breaks
+located at the start of the traces. Keep it `0` if you don't want to limit traces.
+
+### List of traces to inverse
+
+Some receivers may have the wrong polarity, so you can specify which traces should be inversed. Note, that inversion 
+will be applied on the gathers level. For example, if you have 96 traces, `Traces per gather` = 48 and
+`List of traces to inverse` = (2, 30, 48), then traces (2, 3, 48, 50, 78, 96) will be inversed.
+
+Notes:
+- Trace indexing starts at 1.
+- Option is not available on desktop app.
+
+
+## Recommendations
+You can receive predictions for any file with any parameters, but to get a better result, you should comply with the 
+following guidelines:
+- Your file should contain one or more gathers. By a gather, we mean that traces within a single gather can be 
+geophysically interpreted. **The traces within the same gather should not be random**, since we are using information 
+about adjacent traces.
+- All gathers in the file must contain the same number of traces.
+- The number of traces in gather must be equal to `Traces per gather` or divisible by it without a remainder. 
+For example, if you have CSP gathers and the number of receivers is 48, then you can set the parameter 
+value to 48, 24, or 12.
+- We don't sort your file (CMP, CRP, CSP, etc), so you should send us files with traces sorted by yourself. 
+- You can process a file with independent seismograms obtained from different polygons, under different conditions, etc., 
+but the requirements listed above must be met.

first-breaks-picking-0.0.1/README.md

@@ -0,0 +1,220 @@
+# First breaks picking
+This project is devoted to pick waves that are the first to be detected on a seismogram (first breaks, first arrivals).
+Traditionally, this procedure is performed manually. When processing field data, the number of picks reaches hundreds of
+thousands. Existing analytical methods allow you to automate picking only on high-quality data with a high
+signal / noise ratio. 
+
+As a more robust algorithm, it is proposed to use a neural network to pick the first breaks. Since the data on adjacent
+seismic traces have similarities in the features of the wave field, **we pick first breaks on 2D seismic gather**, not 
+individual traces.
+
+![](docs/images/intro_small.PNG)
+
+# Installation
+
+Library is available in PyPI:
+```shell
+pip install -U first-breaks-picking
+```
+
+### Extra data
+
+- To pick first breaks you need 
+to [download model](https://oml.daloroserver.com/download/seis/fb.onnx). 
+
+- If you have no seismic data, you can also 
+[download small SGY file](https://raw.githubusercontent.com/DaloroAT/first_breaks_picking/main/data/real_gather.sgy).
+
+It's also possible to download them with Python using the following snippet:
+
+```python
+from first_breaks.utils.utils import (download_demo_sgy, 
+                                      download_model_onnx)
+
+sgy_filename = 'data.sgy'
+model_filename = 'model.onnx'
+
+download_demo_sgy(sgy_filename)
+download_model_onnx(model_filename)
+```
+
+# How to use it
+
+The library can be used in Python, or you can use the desktop application. The former has more flexibility for 
+building your own picking scenario and processing multiple files. The difference between the latter is that it 
+allows you to work interactively with only one file and has better performance in visualization.
+
+
+### Create SGY
+We provide several ways to create `SGY` object: from file, `bytes` or `numpy` array. 
+
+From file:
+```python
+from first_breaks.sgy.reader import SGY
+
+sgy_filename = ...  # put path to your file. 
+sgy = SGY(sgy_filename)
+```
+
+From `bytes`:
+```python
+from first_breaks.sgy.reader import SGY
+
+sgy_filename = ...  # put path to your file. 
+
+with open(sgy_filename, 'rb') as fin:
+    sgy_bytes = fin.read()
+
+sgy = SGY(sgy_bytes)
+```
+
+From `numpy` array:
+```python
+import numpy as np
+from first_breaks.sgy.reader import SGY
+
+num_samples = 1000
+num_traces = 48
+dt_mcs = 1e3
+
+traces = np.random.random((num_samples, num_traces))
+sgy = SGY(traces, dt_mcs=dt_mcs)
+```
+
+#### Content of SGY 
+
+Created `SGY` allows you to read traces, get observation parameters and view headers (empty if created from `numpy`)
+
+```python
+from first_breaks.sgy.reader import SGY
+
+sgy: SGY = ...  # put here previously created SGY
+
+# get all traces or specific traces limited by time
+all_traces = sgy.read()
+block_of_data = sgy.read_traces_by_ids(ids=[1, 2, 3, 10],
+                                       min_sample=100,
+                                       max_sample=500)
+
+# number of traces, values are the same
+print(sgy.num_traces, sgy.ntr)
+# number of time samples, values are the same
+print(sgy.num_samples, sgy.ns) 
+# = (ns, ntr)
+print(sgy.shape)
+# time discretization, in mcs, in mcs, in ms
+print(sgy.dt, sgy.dt_mcs, sgy.dt_ms)
+
+# dict with headers in the first 3600 bytes of the file
+print(sgy.general_headers)
+# pandas DataFrame with headers for each trace
+print(sgy.traces_headers.head())
+```
+
+### Create task for picking
+
+Next, we create a task for picking and pass the picking parameters to it. They have default values, but for the 
+best quality, they must be matched to specific data. You can use the desktop application to evaluate the parameters.
+A detailed description of the parameters can be found  in the following chapters.
+
+```python
+from first_breaks.sgy.reader import SGY
+from first_breaks.picking.task import Task
+
+sgy: SGY = ...  # put here previously created SGY
+task = Task(sgy, 
+            traces_per_gather=24,
+            maximum_time=200)
+```
+
+### Pick first breaks
+
+In this step, we use the neural network for picking. If you downloaded the model according to the installation section, 
+then pass the path to it. Or leave the path to the model empty so that we can download it automatically.
+
+```python
+from first_breaks.picking.task import Task
+from first_breaks.picking.picker import PickerONNX
+
+task: Task = ...  # put here previously created task
+picker = PickerONNX()
+task = picker.process_task(task)
+
+# we can see results of picking
+print(task.picks_in_samples)
+print(task.picks_in_ms)
+print(task.confidence)
+```
+
+
+
+
+
+
+[//]: # (- We can create it from `numpy` array.)
+
+# Picking process
+
+Neural network process file as series of **images**. There is why **the traces should not be random**,
+since we are using information about adjacent traces.
+
+
+To obtain the first breaks we do the following steps:
+1) Read all traces in the file.
+![All traces](docs/images/full.png)
+2) Limit time range by `Maximum time`. 
+![Limited by time](docs/images/tm_100.png)
+3) Split the sequence of traces into independent gathers of lengths `Traces per gather` each. 
+![Splitted file](docs/images/tm_100_tr_24_24_24_24.png)
+4) Apply trace modification on the gathers level if necessary (`Gain`, `Clip`, etc). 
+5) Calculate first breaks for individual gathers independently.
+![Picked shots](docs/images/tm_100_tr_24_24_24_24_picks.png)
+6) Join the first breaks of individual gathers.
+![Picked file](docs/images/tm_100_picks.png)
+
+To achieve the best result, you need to modify the picking parameters.
+
+### Traces per gather
+
+`Traces per gather` is the most important parameter for picking. The parameter defines how we split the sequence of 
+traces into individual gathers. 
+
+Suppose we need to process a file with 96 traces. Depending on the value of `Traces per gather` parameter, we will 
+process it as follows:
+- `Traces per gather` = 24. We will process 4 gathers with 24 traces each. 
+![4 full shots](docs/images/tm_100_tr_24_24_24_24.png)
+- `Traces per gather` = 48. We will process 2 gathers with 48 traces each.
+![2 full shots](docs/images/tm_100_tr_48_48.png)
+- `Traces per gather` = 40. We will process 2 gathers with 40 traces each and 1 gather with the remaining 16 traces. 
+The last gather will be interpolated from 16 to 40 traces. 
+![2 full + 1 interpolated shots](docs/images/tm_100_tr_40_40_16.png)
+
+### Maximum time
+
+You can localize the area for finding first breaks. Specify `Maximum time` if you have long records but the first breaks
+located at the start of the traces. Keep it `0` if you don't want to limit traces.
+
+### List of traces to inverse
+
+Some receivers may have the wrong polarity, so you can specify which traces should be inversed. Note, that inversion 
+will be applied on the gathers level. For example, if you have 96 traces, `Traces per gather` = 48 and
+`List of traces to inverse` = (2, 30, 48), then traces (2, 3, 48, 50, 78, 96) will be inversed.
+
+Notes:
+- Trace indexing starts at 1.
+- Option is not available on desktop app.
+
+
+## Recommendations
+You can receive predictions for any file with any parameters, but to get a better result, you should comply with the 
+following guidelines:
+- Your file should contain one or more gathers. By a gather, we mean that traces within a single gather can be 
+geophysically interpreted. **The traces within the same gather should not be random**, since we are using information 
+about adjacent traces.
+- All gathers in the file must contain the same number of traces.
+- The number of traces in gather must be equal to `Traces per gather` or divisible by it without a remainder. 
+For example, if you have CSP gathers and the number of receivers is 48, then you can set the parameter 
+value to 48, 24, or 12.
+- We don't sort your file (CMP, CRP, CSP, etc), so you should send us files with traces sorted by yourself. 
+- You can process a file with independent seismograms obtained from different polygons, under different conditions, etc., 
+but the requirements listed above must be met.