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NVIDIA Clara Imaging Brings AI-Assisted Annotation and Model Training to XNAT to Enable Medical Imaging AI

Building on the announcement at RSNA 2019, XNAT, the most widely-used open-source informatics platform for imaging research, announced the beta release of XNAT Machine Learning (XNAT ML).

XNAT, one of the most widely-used open-source informatics platforms for imaging research, announced the general release of XNAT 1.8 on March 10. Building on the announcement of XNAT ML Beta in the summer of 2020, XNAT will accelerate the creation of AI models by providing an end-to-end development platform, enabling faster collaborations between data science and clinical teams.

Figure 1. XNAT, powered by NVIDIA Clara Imaging, enables clinicians, and data scientists to create AI with a comprehensive set of tools.

XNAT, in collaboration with NVIDIA, Radiologics, and the ICR Imaging Informatics group, announced the general availability of XNAT 1.8, adding support for model training and AI-assisted annotation workflows. This integration was first announced at the RSNA 2019 conference, where a proof of concept was demonstrated using models and APIs from the NVIDIA Clara Imaging framework with accelerated GPU computing.

The XNAT release introduces new capabilities with the XNAT imaging research platform, accelerated by GPUs:

  • Assemble training-specific collections of imaging data files into specific training projects to build balanced data cohorts
  • Draw new segmentations and annotations on that data, using NVIDIA Clara Train’s AI-assisted annotation
  • Install and configure pre-trained models from Clara Train, available through NVIDIA NGC into the XNAT ML environment
  • Train models with annotated datasets using training framework  provided by NVIDIA Clara Train 

NVIDIA Clara Imaging is an application framework that accelerates the development and deployment of AI in medical imaging. Built for anyone building AI models, Clara Imaging offers pre-trained models, collaborative techniques to train robust AI models without sharing patient data across institutions, and end-to-end software for scalable and modular AI deployments.

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Misc

GTC 21: Top 5 High Performance Computing Technical Sessions

Explore sessions covering topics ranging across domain-specific use cases, to the fundamentals of how GPU computing works and what’s new in the latest developer tools.

From weather forecasting and energy exploration, to computational chemistry and molecular dynamics, NVIDIA compute and networking technologies are optimizing nearly 2,000 applications across a broad-range of scientific domains and industries. By leveraging GPU-powered parallel processing, users can accelerate advanced, large-scale applications efficiently and reliably, paving the way to scientific discovery.

Explore sessions across a variety of topics ranging across domain-specific use cases, to the fundamentals of how GPU computing works and what’s new in the latest developer tools.

  1. Convergence of AI and HPC to Solve Grand Challenge Science Problems

    The response to the COVID-19 pandemic poses a Grand Challenge Science problem with immediate impact for global health and well-being. We’ll discuss the award-winning work that was recognized at the recent SC20 event with the Gordon Bell for COVID competition, and provide insight into how the methods were applied, and their future plans.

    Tom Gibbs, Manager, Developer Relations, NVIDIA
    Rommie Amaro, Professor, UCSD
    Arvind Ramanathan, Professor, ANL
    James Phillips, Senior Research Programmer, University of Illinois
    Lillian Chong, Associate Professor, University of Pittsburgh
    Thomas Miller, CEO, Entos

  1. Mixed-Precision Machine Learning Method for Environmental Applications on GPUs

    A primary machine learning algorithm for spatial statistics is the maximum log-likelihood estimation (MLE) function, whose central data structure is a dense covariance matrix that requires two operations: inverse and determinant evaluation. To reduce the time complexity, we migrate MLE to three-precision approximation (double/single/half) by exploiting the loss of correlation with distance. We exploit the advantages of NVIDIA Tensor Core technology to accelerate spatial modeling on large-scale soil moisture and wind speed real datasets.

    Hatem Ltaief, Principal Research Scientist, KAUST
    Sameh Abdulah, Research Scientist, KAUST

  1. Introducing Developer Tools for Arm and NVIDIA Systems

    Explore the role of key tools and toolchains on Arm servers, from Arm, NVIDIA and elsewhere — and show how each tool fits in the end-to-end journey to production science and simulation.

    David Lecomber, Senior Director, Arm

  1. Physics-Guided Deep Learning for Fluid Dynamics

    This talk will demonstrate the advantages of using a Turbulent-Flow Net and Equivariant Net approach to a variety of physical systems including fluid and traffic dynamics.

    Rose Yu, Assistant Professor, University of California, San Diego

  1. How GPU Computing Works

    Come for an introduction to GPU computing by the lead architect of CUDA. We’ll walk through the internals of how the GPU works and why CUDA is the way that it is, and connect the dots between physical hardware and parallel computing.

    Stephen Jones, CUDA Architect, NVIDIA

Register today for free and start building your schedule.You can also explore featured HPC sessions here and GPU programming sessions here.

Categories
Misc

AI agent plays Contra

AI agent plays Contra
submitted by /u/1991viet
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Categories
Misc

Trying to run GPT-2-master, getting error

Hi there! im very new at this so if i’ve left anything out please let me know!
so far ive downloaded the file, used cd to get into it and then have done this:

conda create -n py36 python=3.6 anaconda pip3 install tensorflow==1.12.0 pip3 install -r requirements.txt python3 download_model.py 124M 

and upon running

python3 src/interactive_conditional_samples.py --top_k 40 

Anaconda returns

C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:523: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_qint8 = np.dtype([("qint8", np.int8, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:524: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_quint8 = np.dtype([("quint8", np.uint8, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:525: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_qint16 = np.dtype([("qint16", np.int16, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:526: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_quint16 = np.dtype([("quint16", np.uint16, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:527: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_qint32 = np.dtype([("qint32", np.int32, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:532: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. np_resource = np.dtype([("resource", np.ubyte, 1)]) 2021-03-15 16:39:25.892397: I tensorflow/core/platform/cpu_feature_guard.cc:141] Your CPU supports instructions that this TensorFlow binary was not compiled to use: AVX2 Traceback (most recent call last): File "src/interactive_conditional_samples.py", line 91, in <module> fire.Fire(interact_model) File "C:ProgramDataAnaconda3envspy36libsite-packagesfirecore.py", line 141, in Fire component_trace = _Fire(component, args, parsed_flag_args, context, name) File "C:ProgramDataAnaconda3envspy36libsite-packagesfirecore.py", line 471, in _Fire target=component.__name__) File "C:ProgramDataAnaconda3envspy36libsite-packagesfirecore.py", line 681, in _CallAndUpdateTrace component = fn(*varargs, **kwargs) File "src/interactive_conditional_samples.py", line 65, in interact_model temperature=temperature, top_k=top_k, top_p=top_p File "C:UserslouisOneDriveDesktopgpt-2-testsrcsample.py", line 74, in sample_sequence past, prev, output = body(None, context, context) File "C:UserslouisOneDriveDesktopgpt-2-testsrcsample.py", line 66, in body logits = top_p_logits(logits, p=top_p) File "C:UserslouisOneDriveDesktopgpt-2-testsrcsample.py", line 28, in top_p_logits sorted_logits = tf.sort(logits, direction='DESCENDING', axis=-1) AttributeError: module 'tensorflow' has no attribute 'sort' 

I have no idea what any of this means. if someone could help me out it would mean a lot! 🙂

submitted by /u/LouisHendrich
[visit reddit] [comments]

Categories
Misc

AI agent plays Contra

AI agent plays Contra
submitted by /u/1991viet
[visit reddit] [comments]
Categories
Misc

Trying to run GPT-2-master, getting error

Hi there! im very new at this so if i’ve left anything out please let me know!
so far ive downloaded the file, used cd to get into it and then have done this:

conda create -n py36 python=3.6 anaconda pip3 install tensorflow==1.12.0 pip3 install -r requirements.txt python3 download_model.py 124M 

and upon running

python3 src/interactive_conditional_samples.py --top_k 40 

Anaconda returns

C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:523: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_qint8 = np.dtype([("qint8", np.int8, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:524: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_quint8 = np.dtype([("quint8", np.uint8, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:525: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_qint16 = np.dtype([("qint16", np.int16, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:526: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_quint16 = np.dtype([("quint16", np.uint16, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:527: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_qint32 = np.dtype([("qint32", np.int32, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:532: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. np_resource = np.dtype([("resource", np.ubyte, 1)]) 2021-03-15 16:39:25.892397: I tensorflow/core/platform/cpu_feature_guard.cc:141] Your CPU supports instructions that this TensorFlow binary was not compiled to use: AVX2 Traceback (most recent call last): File "src/interactive_conditional_samples.py", line 91, in <module> fire.Fire(interact_model) File "C:ProgramDataAnaconda3envspy36libsite-packagesfirecore.py", line 141, in Fire component_trace = _Fire(component, args, parsed_flag_args, context, name) File "C:ProgramDataAnaconda3envspy36libsite-packagesfirecore.py", line 471, in _Fire target=component.__name__) File "C:ProgramDataAnaconda3envspy36libsite-packagesfirecore.py", line 681, in _CallAndUpdateTrace component = fn(*varargs, **kwargs) File "src/interactive_conditional_samples.py", line 65, in interact_model temperature=temperature, top_k=top_k, top_p=top_p File "C:UserslouisOneDriveDesktopgpt-2-testsrcsample.py", line 74, in sample_sequence past, prev, output = body(None, context, context) File "C:UserslouisOneDriveDesktopgpt-2-testsrcsample.py", line 66, in body logits = top_p_logits(logits, p=top_p) File "C:UserslouisOneDriveDesktopgpt-2-testsrcsample.py", line 28, in top_p_logits sorted_logits = tf.sort(logits, direction='DESCENDING', axis=-1) AttributeError: module 'tensorflow' has no attribute 'sort' 

I have no idea what any of this means. if someone could help me out it would mean a lot! 🙂

submitted by /u/LouisHendrich
[visit reddit] [comments]

Categories
Misc

AI agent plays Contra

AI agent plays Contra
submitted by /u/1991viet
[visit reddit] [comments]
Categories
Misc

Trying to run GPT-2-master, getting error

Hi there! im very new at this so if i’ve left anything out please let me know!
so far ive downloaded the file, used cd to get into it and then have done this:

conda create -n py36 python=3.6 anaconda pip3 install tensorflow==1.12.0 pip3 install -r requirements.txt python3 download_model.py 124M 

and upon running

python3 src/interactive_conditional_samples.py --top_k 40 

Anaconda returns

C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:523: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_qint8 = np.dtype([("qint8", np.int8, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:524: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_quint8 = np.dtype([("quint8", np.uint8, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:525: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_qint16 = np.dtype([("qint16", np.int16, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:526: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_quint16 = np.dtype([("quint16", np.uint16, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:527: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_qint32 = np.dtype([("qint32", np.int32, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:532: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. np_resource = np.dtype([("resource", np.ubyte, 1)]) 2021-03-15 16:39:25.892397: I tensorflow/core/platform/cpu_feature_guard.cc:141] Your CPU supports instructions that this TensorFlow binary was not compiled to use: AVX2 Traceback (most recent call last): File "src/interactive_conditional_samples.py", line 91, in <module> fire.Fire(interact_model) File "C:ProgramDataAnaconda3envspy36libsite-packagesfirecore.py", line 141, in Fire component_trace = _Fire(component, args, parsed_flag_args, context, name) File "C:ProgramDataAnaconda3envspy36libsite-packagesfirecore.py", line 471, in _Fire target=component.__name__) File "C:ProgramDataAnaconda3envspy36libsite-packagesfirecore.py", line 681, in _CallAndUpdateTrace component = fn(*varargs, **kwargs) File "src/interactive_conditional_samples.py", line 65, in interact_model temperature=temperature, top_k=top_k, top_p=top_p File "C:UserslouisOneDriveDesktopgpt-2-testsrcsample.py", line 74, in sample_sequence past, prev, output = body(None, context, context) File "C:UserslouisOneDriveDesktopgpt-2-testsrcsample.py", line 66, in body logits = top_p_logits(logits, p=top_p) File "C:UserslouisOneDriveDesktopgpt-2-testsrcsample.py", line 28, in top_p_logits sorted_logits = tf.sort(logits, direction='DESCENDING', axis=-1) AttributeError: module 'tensorflow' has no attribute 'sort' 

I have no idea what any of this means. if someone could help me out it would mean a lot! 🙂

submitted by /u/LouisHendrich
[visit reddit] [comments]

Categories
Misc

AI agent plays Contra

AI agent plays Contra
submitted by /u/1991viet
[visit reddit] [comments]
Categories
Misc

Trying to run GPT-2-master, getting error

Hi there! im very new at this so if i’ve left anything out please let me know!
so far ive downloaded the file, used cd to get into it and then have done this:

conda create -n py36 python=3.6 anaconda pip3 install tensorflow==1.12.0 pip3 install -r requirements.txt python3 download_model.py 124M 

and upon running

python3 src/interactive_conditional_samples.py --top_k 40 

Anaconda returns

C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:523: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_qint8 = np.dtype([("qint8", np.int8, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:524: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_quint8 = np.dtype([("quint8", np.uint8, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:525: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_qint16 = np.dtype([("qint16", np.int16, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:526: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_quint16 = np.dtype([("quint16", np.uint16, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:527: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. _np_qint32 = np.dtype([("qint32", np.int32, 1)]) C:ProgramDataAnaconda3envspy36libsite-packagestensorflowpythonframeworkdtypes.py:532: FutureWarning: Passing (type, 1) or '1type' as a synonym of type is deprecated; in a future version of numpy, it will be understood as (type, (1,)) / '(1,)type'. np_resource = np.dtype([("resource", np.ubyte, 1)]) 2021-03-15 16:39:25.892397: I tensorflow/core/platform/cpu_feature_guard.cc:141] Your CPU supports instructions that this TensorFlow binary was not compiled to use: AVX2 Traceback (most recent call last): File "src/interactive_conditional_samples.py", line 91, in <module> fire.Fire(interact_model) File "C:ProgramDataAnaconda3envspy36libsite-packagesfirecore.py", line 141, in Fire component_trace = _Fire(component, args, parsed_flag_args, context, name) File "C:ProgramDataAnaconda3envspy36libsite-packagesfirecore.py", line 471, in _Fire target=component.__name__) File "C:ProgramDataAnaconda3envspy36libsite-packagesfirecore.py", line 681, in _CallAndUpdateTrace component = fn(*varargs, **kwargs) File "src/interactive_conditional_samples.py", line 65, in interact_model temperature=temperature, top_k=top_k, top_p=top_p File "C:UserslouisOneDriveDesktopgpt-2-testsrcsample.py", line 74, in sample_sequence past, prev, output = body(None, context, context) File "C:UserslouisOneDriveDesktopgpt-2-testsrcsample.py", line 66, in body logits = top_p_logits(logits, p=top_p) File "C:UserslouisOneDriveDesktopgpt-2-testsrcsample.py", line 28, in top_p_logits sorted_logits = tf.sort(logits, direction='DESCENDING', axis=-1) AttributeError: module 'tensorflow' has no attribute 'sort' 

I have no idea what any of this means. if someone could help me out it would mean a lot! 🙂

submitted by /u/LouisHendrich
[visit reddit] [comments]