April 2022
Beginner to intermediate
486 pages
10h 22m
Chinese
Content preview from 云端基因组学
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O’Reilly covers everything we've got, with content to help us build a world-class technology community, upgrade the capabilities and competencies of our teams, and improve overall team performance as well as their engagement.I wanted to learn C and C++, but it didn't click for me until I picked up an O'Reilly book. When I went on the O’Reilly platform, I was astonished to find all the books there, plus live events and sandboxes so you could play around with the technology.I’ve been on the O’Reilly platform for more than eight years. I use a couple of learning platforms, but I'm on O'Reilly more than anybody else. When you're there, you start learning. I'm never disappointed.I'm always learning. So when I got on to O'Reilly, I was like a kid in a candy store. There are playlists. There are answers. There's on-demand training. It's worth its weight in gold, in terms of what it allows me to do.
用工作流自动执行分析任务
｜
253
所有命令行工具运行完，都会输出一个返回码。它们用这种简洁方式报告其
状态。返回码因工具而异，其含义有的清晰，有的晦涩。习惯用法是，返回
码
0
表示成功，除此之外都表示失败。某些情况，一个非零返回码可表明命
令成功运行；例如，
Picard
工具
ValidateSamFile
，如成功运行但在它所检
查的文件中发现格式错误，则返回一个非零代码。
其他方面我们虽没讲但也会出错，比如写错输入文件路径，或
JSON
输入文件中字
符串输入未加双引号。我们再次建议你做实验，引入这些错误，看看会发生什么。
这种方式有助于你快速学习如何定位问题。
8.5
介绍分散—聚集并行机制
本章我们再介绍一个工作流示例，就结束你的第一次
WDL
和
Cromwell
系统之旅，
因为你若是之前没体验过并行的力量，我们想让你感受一下。我们现在就来看这个
工作流：它通过
scatter()
函数，并行处理我们前面运行的
HaplotypeCaller
任务，
然后在后续步骤合并各并行作业的输出，如图
8-2
所示。
片段
BAM文件 参考
分散
合并
GVCF文件
GVCF文件 GVCF文件 GVCF文件
图
8
-
2
：一个并行执行 HaplotypeCaller 任务的工作流
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O’Reilly covers everything we've got, with content to help us build a world-class technology community, upgrade the capabilities and competencies of our teams, and improve overall team performance as well as their engagement.Julian F.
I wanted to learn C and C++, but it didn't click for me until I picked up an O'Reilly book. When I went on the O’Reilly platform, I was astonished to find all the books there, plus live events and sandboxes so you could play around with the technology.Addison B.
I’ve been on the O’Reilly platform for more than eight years. I use a couple of learning platforms, but I'm on O'Reilly more than anybody else. When you're there, you start learning. I'm never disappointed.Amir M.
I'm always learning. So when I got on to O'Reilly, I was like a kid in a candy store. There are playlists. There are answers. There's on-demand training. It's worth its weight in gold, in terms of what it allows me to do.