Set the main class by clicking the little. You'll create two of these, one for the GUI (call it Juicebox GUI or whatever you want, really) and one for the CLT. The former turns on all warnings, the latter gives some flexibility since some people haven't updated Java to 1.8 yet. While there, also go to Java Compiler and put this into additional command line options: -Xlint:all -target 1.7 Add ?*.sizes to the list of Resource Patterns. Set this up via IntelliJ Preferences -> Compiler. You'll need to do is be sure *.sizes is included as a file to be copied over to the class files. Then go to VCS -> checkout from version control. Then you'll point to it (IntelliJ has lots of documentation on this sort of thing). To set up in IDEA, have the Java SDK installed Use IntelliJ IDEA (Community edition - free) Durand, and Olga Dudchenko.įor FAQs, or for asking new questions, please see our forum: /forum.html. Ongoing development work is carried out by Muhammad Saad Shamim, Neva C. Past contributors include Ido Machol, Zulkifl Gire, Marie Hoeger, Fanny Huang, Nam Hee Kim, Vi Nguyen, Jay Ryu, Nathaniel T. More details on how to use Juicebox for assembly. Juicebox can now be used to visualize and interactively (re)assemble genomes.Ĭheck out the Juicebox Assembly Tools Module website for Instructions below pertain primarily to usage of command line tools and the Juicebox jar files. Detailed documentation is available on the wiki. Download Juicebox here, or use Juicebox on the web. This distribution includes the source code for Juicebox, Juicer Tools, and Assembly Tools. Without you being just the way you are, he would not have this beauty to grace his house.” Content with his new purpose and understanding the cracked pot never apologized again.Juicebox is visualization software for Hi-C data. For two years I have been able to pick these beautiful flowers to decorate my master's table. I planted flower seeds on your side of the path, and every day while we've walked back from the stream, you've watered them. ![]() The bearer said to the pot, "Did you not notice that there were flowers only on your side of the path, and not on the other pot's side? That's because I have always known about your flaw, and I took advantage of it. ![]() But at the end of the trail, it still felt the old shame because it had leaked out half its load, and so again the pot apologized to the bearer for its failure. The water bearer felt sorry for the old cracked pot, and in his compassion he said, "As we return to the master's house, I want you to notice the beautiful flowers along the path." Indeed, as they went up the hill, the old cracked pot took notice of the sun warming the beautiful wild flowers on the side of the path, and was cheered somewhat. ![]() Because of my flaws, you have to do all of this work, and you don't get full value from your efforts," the pot said. "I have been able, for these past two years, to deliver only half my load because this crack in my side causes water to leak out all the way back to your master's house. "I am ashamed of myself and I apologize to you." "Why?" asked the bearer. After two years of enduring this bitter shame, the pot spoke to the water bearer one day by the stream. But the poor cracked pot was ashamed of its own imperfection, and miserable that it was unable to accomplish what it had been made to do. Of course, the perfect pot was proud of its accomplishments, fulfilled in the design for which it was made. For two years this went on daily, with the bearer delivering only one and a half pots full of water to his master's house. At the end of the long walk from the stream to the master's house, the cracked pot always arrived only half full. One of the pots had a crack in it, and while the other pot was perfect and always delivered a full portion of water. A water bearer had two large pots, one hung on each end of a pole which he carried across his neck.
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