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Eclipse Error Message Invalid Argument

QuoteWhat is struct MESSAGE { }; Here is struct Message : #pragma pack(1) typedef struct Message{ u_short command_code; u_short command_number; u_int timestamp; }MESSAGE; #pragma pack() Quoteis m_message a MESSAGE ? PASS AC=2;AF=1.00;AN=2;CR=98.8266;DP=0;GentrainScore=0.7029;HW=1.0 GT:GC 1/1:0.3471 1 569624 SNP1-559487 T C . I just imported my project in Eclipse and get the errors that I didn't have compiling in command line. Head, Shoulders, Knees and Toes, Knees and Toes Find the "Recursive Size" of a List I've been to Keflavik, Iceland, but now I can't find it on the map! Source

I would rather stick with eclipse, as much as possible. –bob Jul 6 '12 at 1:12 4 Have you tried to rebuild all indexes in project? –Alanir Alonedaw Jul 6 How do the AC, AF, AN, and DP fields change? PASS AC=2;AF=1.00;AN=2;CR=97.8022;DP=0;GentrainScore=0.8070;HW=1.0 GT:GC 1/1:0.3942 If you really want a VCF without monomorphic sites, use the option to drop monomorphic sites after subsetting. Is there a way to test if a variable will fail the INPUT conversion process in SAS ? navigate to these guys

Thanks. 0 · Share on Twitter eflannery San DiegoMember Posts: 9 ✭ April 2015 edited April 2015 Hi, I am using the following command line to run SelectVariants: java -Xmx4g -jar Are electric bike speed limitations set in stone? g++: installation problem, cannot exec `D:\ShiftT_8.2.0\mingw\bin\..\libexec\gcc\mingw32\3.4.5\collect2.exe': Invalid argument I am not aware how to solve this.. Type of screw / fastener should one use to attach veneer covered particle board bookcases together?

Geraldine Van der Auwera, PhD 0 · Share on Twitter Jack Member Posts: 36 ✭ June 2013 Hi, there. Not the answer you're looking for? PASS AC=2;AF=1.00;AN=2;CR=98.8266;DP=0;GentrainScore=0.7029;HW=1.0 GT:GC 1/1:0.3471 1 569624 SNP1-559487 T C . Volledige recensie lezenGeselecteerde pagina'sPaginaInhoudsopgaveInhoudsopgaveTable of Contents Writing Your Own Java Programs Expecting the Unexpected Size Matters Controlling the Flow Which Way Did He How to Flick a Virtual Switch Aroundand Around

Select Variants operates on VCF files (also sometimes referred to as ROD in our documentation, for Reference Ordered Data) provided at the command line using the GATK's built in --variant option. It looks like you're new here. See this documentation page. why not try these out Eric Banks, PhD -- Director, Data Sciences and Data Engineering, Broad Institute of Harvard and MIT 0 · Share on Twitter geertvandeweyer Member Posts: 13 ✭ October 2013 oops, my mistake.

See further below for an explanation of how that works. You signed out in another tab or window. I think there is something wrong with in the vcf file not sure what it is. Not the answer you're looking for?

Browse other questions tagged command-line solaris or ask your own question. https://books.google.nl/books?id=vZfPAwAAQBAJ&pg=PT197&lpg=PT197&dq=Eclipse+Error+Message+Invalid+Argument&source=bl&ots=Ak0btE63sU&sig=fGBGsePiAB3d74O9_b0QKaLGkOQ&hl=en&sa=X&ved=0ahUKEwiJtfKNy6rQAhUIqxoKHeemA7cQ6AEIQzA Here are the lines of code which are problematic only for eclipse : memset(&m_message, 0, sizeof(MESSAGE)); memcpy(outBuffer, reinterpret_cast(message), sizeof(struct Message)); sendto (sock, outBuffer, sizeof(struct Message), 0, (struct sockaddr *) A 17th century colloquial term for children, in the way we use 'kids' today What's a word/phrase like "compulsion" or "addiction" that is more about guilt than physiology or anxiety? Where would this be? 0 · Share on Twitter Geraldine_VdAuwera Administrator, Dev Posts: 10,633 admin January 2013 You need to download it from the source code repo: https://github.com/broadgsa/gatk/tree/master/public/perl Geraldine Van der

The vcf file was given to the phASER program https://github.com/secastel/phaser/tree/master/phaser along with generated vcf to do phasing. this contact form Too many reports because report button is too convenient Random integers with differing probabilities more hot questions question feed about us tour help blog chat data legal privacy policy work here ERROR Visit our website and forum for extensive documentation and answers to ERROR commonly asked questions http://www.broadinstitute.org/gatk ERROR ERROR MESSAGE: Invalid command line: Invalid JEXL expression detected for select-0 with message How to correctly write "7 apples" according to the international system of units (SI) Sci-fi book about people living in a giant bubble in space How do I get the last

For example, when selecting down to just sample NA12878 from the OMNI VCF in 1000G (1525 samples), the resulting VCF will look like: 1 82154 rs4477212 A G . First thanks for your help. Personal Open source Business Explore Sign up Sign in Pricing Blog Support Search GitHub This repository Watch 41 Star 141 Fork 24 gnuarmeclipse/plug-ins Code Issues 66 Pull requests 3 Projects http://powerproxy.net/eclipse-error/eclipse-error-139.html I was running an x86 binary on a sparc machine.

Geraldine Van der Auwera, PhD 0 · Share on Twitter jhl667 OregonMember Posts: 3 ✭ September 2014 @Geraldine_VdAuwera‌ Alright, I will keep working on it. GATK (HaplotypeCaller) was used to generate vcf for several samples jointly. For example there's a function SetRun in my code, and eclipse mentions this error: "called Invalid arguments 'Candidates are: void SetRun(?)'", whereas SetRun is of type static void SetRun (uint32_t run);

I think this is clang issue,new version maybe fix.

Which current networking protocol would be the optimal choice for very small FTL bandwidth? For clarity, in previous versions of SelectVariants, the first two monomorphic sites lose the ALT allele, because NA12878 is hom-ref at this site, resulting in VCF that looks like: 1 82154 Why do Internet forums tend to prohibit responding to inactive threads? Hi all.

Thanks for the explanation. ERROR If not, please post the error message, with stack trace, to the GATK forum. up vote 4 down vote favorite -bash-3.00$ ./p4 -V -bash: ./p4: Invalid argument What does "Invalid argument" mean in Unix? http://powerproxy.net/eclipse-error/eclipse-error-jvm-dll.html For example, given a single VCF file, one or more samples can be extracted from the file, based either on a complete sample name, or on a pattern match.

Has there ever been a tail-dragger with retractable tail-gear? stackoverflow.com/a/9436882/640378 On Solaris, when you try running a SPARC binary on an x86 platform (or vice versa), "Invalid argument" is the error you get. –user640378 Apr 13 '12 at 18:32 Disable Preferences -> C/C++ -> Code Analysis -> Syntax and Semantec Errors -> Invalid arguments or all group. I use the following commandline to extract variant locations from a VQSR recalibrated file , both for snp and indel: java -Xmx1500m -jar ../../binaries/gatk/2.4.9-g532efad/bin/GenomeAnalysisTK.jar -T SelectVariants -R ../../References/hg19/samtools/0.1.19/hg19.fasta -V UnifiedGenotyper.multi.vcf -o

When …… 29.07.2002 · When you compile a Visual C# .NET console application, you may receive the following error message: error CS1502: The best overloaded method …… ← Previous Post Next Post share|improve this answer edited Jul 15 '12 at 22:44 answered Apr 15 '12 at 20:17 user640378 3201412 add a comment| Your Answer draft saved draft discarded Sign up or log This is related to the tricky issue of isPolymorphic() vs. PASS AC=0;AF=0.00;AN=2;CR=100.0;DP=0;GentrainScore=0.7826;HW=1.0 GT:GC 0/0:0.7205 1 534247 SNP1-524110 C T .

for example: the multi-sample input file (trimmed down): chr1 7828173 . You'll learn what goes into a program, how to put the pieces together, how to deal with challenges, and how to make it work. For example, I had the following function call: IORegistryEntryGetParentEntry(service, kIOServicePlane, &parent); Which was giving the error: Invalid arguments 'Candidates are: ? Additional information For information on how to construct regular expressions for use with this tool, see the method article on variant filtering with JEXL, or "Summary of regular-expression constructs" section here

ERROR variant contigs = [M76611, PFC10_API_IRAB, Pf3D7_01_v3, Pf3D7_02_v3, Pf3D7_03_v3, Pf3D7_04_v3, Pf3D7_05_v3, Pf3D7_06_v3, Pf3D7_07_v3, Pf3D7_08_v3, Pf3D7_09_v3, Pf3D7_10_v3, Pf3D7_11_v3, Pf3D7_12_v3, Pf3D7_13_v3, Pf3D7_14_v3] ERROR reference contigs = [Pf3D7_04_v3, Pf3D7_05_v3, Pf3D7_02_v3, Pf3D7_09_v3, Pf3D7_12_v3, Pf3D7_06_v3, Pf3D7_14_v3, asked 4 years ago viewed 4539 times active 8 months ago Upcoming Events 2016 Community Moderator Election ends in 2 days Linked 3 Converting __int64 to long in Windows 3 How At age 25, is it still okay to wear dental braces to work? Groups Categories 102 All Categories60 Ask the WDL team 42 WDL Documentation 3 FAQs 4 Tutorials 4 Real Workflows 9 Components 6 Plumbing Options 4 Execution 12 Development Powered by Vanilla.

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