Nerd talk: regexes
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This document provides an introduction to regular expressions (regexes) using Perl and Python syntax. It covers common regex metacharacters like ^, $, ., \w, \d, and quantifiers like *, +, ?, {m,n}. Examples demonstrate how to use regexes to find and replace text, extract sections from files, and demultiplex sequencing data. The document recommends additional online resources for learning sed, grep, Perl, Python, and Vim regexes.
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![Grouping
[ABC] any of these
characters
(AB|BC|CA) any of
these expressions
(THIS!) save this
[A-Za-z0-9] ranges
/^[ACTG]{4}G[ACTG]
{2}AA$/
/^(0?[1-9]|[0-2]d|3[01])
(0?d|1[0-2])
(d{2}|d{4})$/](https://image.slidesharecdn.com/is2regex-140307103711-phpapp02/85/Nerd-talk-regexes-10-320.jpg)
![E.g.: demultiplexing fasta
1. Barcode
2. Primer
3. Random nucleotides
grep -P '1:N:0:ACTGGTT' -A3 ¨Cno-group-separator
multiplex_R1.fastq | grep -P '^[ACTGN]
{4}CCC[ACGT]T[GC]AGATA' -A2 -B1 --no-group-separator >
deplexed_R1.fq](https://image.slidesharecdn.com/is2regex-140307103711-phpapp02/85/Nerd-talk-regexes-15-320.jpg)
![Sed: find & replace
¡°Are you gonna talk about
vim regexes?¡±
¡°Sed regexes are weird¡±
My work around:
use ranges
[0-9]
[A-Z]
[a-z]
[A-Za-z]](https://image.slidesharecdn.com/is2regex-140307103711-phpapp02/85/Nerd-talk-regexes-17-320.jpg)
![Sed: find & replace
¡°Are you gonna talk about
vim regexes?¡±
Sed regexes are weird¡±
My work around:
use ranges
[0-9]
[A-Z]
[a-z]
[A-Za-z]
E.g.:
¡°Oh noes, Americans don't know how to
separate decimals!¡±
sed 's/./,/g' hisfile.tab > myfile.tab
¡°Oh noes, this bloody file was edited in
Windows!¡±
sed 's/r/n/' theirfile.tab > decentfile.tab
¡°Oh noes, Cassava 1.6 has a slash in it!¡±
sed 's,/1, 1:N:0:NNNNNN,' oldfile.fq > newfile.fq](https://image.slidesharecdn.com/is2regex-140307103711-phpapp02/85/Nerd-talk-regexes-18-320.jpg)
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Method. We propose a model-driven engineering approach to automate the construction of MT environments. Starting from a meta-model capturing the domain concepts, and a description of the domain execution environment, our approach produces an MT environment featuring comprehensive support for the MT process. This includes the definition of domain-specific metamorphic relations, their evaluation, detailed reporting of the testing results, and the automated search-based generation of follow-up test cases.
Results. Our method is supported by an extensible platform for Eclipse, called Gotten. We demonstrate its effectiveness by creating an MT environment for simulation-based testing of data centres and comparing with existing tools; its suitability to conduct MT processes by replicating previous experiments; and its generality by building another MT environment for video streaming APIs.
Conclusion. Gotten is the first platform targeted at reducing the development effort of domain-specific MT environments. The environments created with Gotten facilitate the specification of metamorphic relations, their evaluation, and the generation of new test cases.GDG Cloud Southlake #41: Shay Levi: Beyond the Hype:How Enterprises Are Using AI
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AI promises to revolutionize enterprises - but what¡¯s actually working in the real world? In this session, we cut through the noise and share practical, real-world AI implementations that deliver results. Learn how leading enterprises are solving their most complex AI challenges in hours, not months, while keeping full control over security, compliance, and integrations. We¡¯ll break down key lessons, highlight recent use cases, and show how Unframe¡¯s Turnkey Enterprise AI Platform is making AI adoption fast, scalable, and risk-free.
Join the session to get actionable insights on enterprise AI - without the fluff.
Bio:
Shay Levi is the Co-Founder and CEO of Unframe, a company redefining enterprise AI with scalable, secure solutions. Previously, he co-founded Noname Security and led the company to its $500M acquisition by Akamai in just four years. A proven innovator in cybersecurity and technology, he specializes in building transformative solutions.The Future is Here ¨C Learn How to Get Started! Ionic App Development
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Ionic App Development Process ¨C Includes planning, UI/UX design, coding, testing, and deployment for scalable mobile solutions.
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In this talk, I¡¯ll show you how to go from a shiny new Java app to production in under 10 minutes¡ªwith fast builds, cheap deploys, and zero downtime. We¡¯ll go deep into optimizing builds with Gradle (it¡¯s time to leave Maven in the dust), parallelization strategies, and smarter caching mechanics that make your CI/CD pipelines fly. From there, we¡¯ll review the dozen+ ways AWS lets you deploy apps and cut through the chaos to find the solutions that work best for lean, fast, cost-effective pipelines. Spoiler: ECS and EKS usually aren¡¯t the answer. Oh, and I¡¯ll even show you how AI tools like AWS Bedrock can help streamline your processes further, so you can automate what should already be automatic.
This talk is for developers fed up with the cost, complexity, and friction of modern cloud setups¡ªor those who long for the simplicity of the Heroku/Beanstalk/PCF days when deploying to the cloud wasn¡¯t a headache. Whether you¡¯re on AWS, Azure, or GCP, you¡¯ll learn actionable, cloud-agnostic tips to build faster, deploy cheaper, and refocus on what matters most: delivering value to your users.Graphs & GraphRAG - Essential Ingredients for GenAI
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https://youtu.be/EG2Mbw2DVnU?si=rlx-GG2QMQpIxQYiUiPath Agentic automation with Autopilot for everyone + new features/releases
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Models include all-in-one sensor configurations as well as modular environmental monitoring systems. Real-time displays include hardware console, WeatherMaster? Software, and a Weather MicroServer? with industrial protocols, web and app monitoring options.
Innovative Weather Monitoring: Trusted by industry and government agencies worldwide. Professional, easy-to-use monitoring options. Customized sensor configurations. One-year warranty with personal technical support. Proven reliability, innovation, and brand recognition for over 45 years.ºÝºÝߣs from Perth MuleSoft Meetup March 2025
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Revolutionizing Healthcare Interoperability with MuleSoft
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MuleSoft Agentforce and GenAINerd talk: regexes
- 2. ¡°Some people, when confronted with a problem, think 'I know, I'll use regular expressions!' Now they have two problems.¡±
- 5. *
- 6. Perl style regex: It's magic done right!
- 7. Metacharacters ^ beginning $ end . anything escape /^....G..AA$/
- 8. Escaped characters s whitespace /^wwwwGwwAA$/ S not-whitespace /^dddddddd$/ w word d digit . dot counterslash
- 9. Repetition ? 0 or 1 time /^w{4}Gw{2}AA$/ * 0 or more times /^d{1,2}d{1,2}d{2,4}$/ + 1 or more times *? ungreedy * +? ungreedy + {m} m times {m, n} m up to n times {m, n}? ungreedy {m,n}
- 10. Grouping [ABC] any of these characters (AB|BC|CA) any of these expressions (THIS!) save this [A-Za-z0-9] ranges /^[ACTG]{4}G[ACTG] {2}AA$/ /^(0?[1-9]|[0-2]d|3[01]) (0?d|1[0-2]) (d{2}|d{4})$/
- 14. E.g.: finding files iel' v 'Dan ' | grep bo p -v 'bu e '->' | gr ep -la | gr ls
- 15. E.g.: demultiplexing fasta 1. Barcode 2. Primer 3. Random nucleotides grep -P '1:N:0:ACTGGTT' -A3 ¨Cno-group-separator multiplex_R1.fastq | grep -P '^[ACTGN] {4}CCC[ACGT]T[GC]AGATA' -A2 -B1 --no-group-separator > deplexed_R1.fq
- 16. E.g.: paper figures! From the subset of unique sequences that span the entire region under study, how many unique sequences are matched by each primer combination?
- 17. Sed: find & replace ¡°Are you gonna talk about vim regexes?¡± ¡°Sed regexes are weird¡± My work around: use ranges [0-9] [A-Z] [a-z] [A-Za-z]
- 18. Sed: find & replace ¡°Are you gonna talk about vim regexes?¡± Sed regexes are weird¡± My work around: use ranges [0-9] [A-Z] [a-z] [A-Za-z] E.g.: ¡°Oh noes, Americans don't know how to separate decimals!¡± sed 's/./,/g' hisfile.tab > myfile.tab ¡°Oh noes, this bloody file was edited in Windows!¡± sed 's/r/n/' theirfile.tab > decentfile.tab ¡°Oh noes, Cassava 1.6 has a slash in it!¡± sed 's,/1, 1:N:0:NNNNNN,' oldfile.fq > newfile.fq
- 19. Other neat stuff grep (-c) sort (-n, -r, -k, -t) uniq -c
- 21. sed 's/fear of regex/love of regex/g'