I have downloaded SNP database from 1000Genome, and if I try to sort the vcf file, I get error message that says Chromosome name is 1, but it is expected to be chr1. In fact, in my vcf file, it is chr1.

Here is the command line:

java -Xms10g -Xmx20g \
  -Djava.io.tmpdir=tmp \
  -jar ${Picard}picard.jar SortVcf \
  INPUT=ALL.wgs.phase3_shapeit2_mvncall_integrated_v5b.20130502.sites_chr.vcf \
  OUTPUT=ALL.wgs.phase3_shapeit2_mvncall_integrated_v5b.20130502.sites_chr_sorted.vcf \
  SEQUENCE_DICTIONARY=${hg38}hg38.dict

Here is the log:

[Tue Sep 22 17:04:12 CEST 2015] picard.vcf.SortVcf INPUT=[ALL.wgs.phase3_shapeit2_mvncall_integrated_v5b.20130502.sites_chr.vcf] OUTPUT=ALL.wgs.phase3_shapeit2_mvncall_integrated_v5b.20130502.sites_chr_sorted.vcf SEQUENCE_DICTIONARY=/home/kong/Haiying/Reference/hg38/hg38.dict    VERBOSITY=INFO QUIET=false VALIDATION_STRINGENCY=STRICT COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=true CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json
[Tue Sep 22 17:04:12 CEST 2015] Executing as kong@hpc22 on Linux 3.2.53-1.el5.elrepo amd64; Java HotSpot(TM) 64-Bit Server VM 1.8.0_60-b27; Picard version: 1.138(aa51703435dc6a423013e74e56b0b68405facd79_1439324166) IntelDeflater
[Tue Sep 22 17:04:12 CEST 2015] picard.vcf.SortVcf done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=10290200576
To get help, see http://broadinstitute.github.io/picard/index.html#GettingHelp
Exception in thread "main" java.lang.IllegalArgumentException: java.lang.AssertionError: SAM dictionaries are not the same: SAMSequenceRecord(name=1,length=249250621,dict_index=0,assembly=b37) was found when SAMSequenceRecord(name=chr1,length=248956422,dict_index=0,assembly=null) was expected.
        at picard.vcf.SortVcf.collectFileReadersAndHeaders(SortVcf.java:112)
        at picard.vcf.SortVcf.doWork(SortVcf.java:81)
        at picard.cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:206)
        at picard.cmdline.PicardCommandLine.instanceMain(PicardCommandLine.java:95)
        at picard.cmdline.PicardCommandLine.main(PicardCommandLine.java:105)
Caused by: java.lang.AssertionError: SAM dictionaries are not the same: SAMSequenceRecord(name=1,length=249250621,dict_index=0,assembly=b37) was found when SAMSequenceRecord(name=chr1,length=248956422,dict_index=0,assembly=null) was expected.
        at htsjdk.samtools.SAMSequenceDictionary.assertSameDictionary(SAMSequenceDictionary.java:165)
        at picard.vcf.SortVcf.collectFileReadersAndHeaders(SortVcf.java:110)
        ... 4 more

And here is part of the vcf file:

#CHROM  POS     ID      REF     ALT     QUAL    FILTER  INFO
chr1    10177   rs367896724     A       AC      100     PASS    AC=2130;AF=0.425319;AN=5008;NS=2504;DP=103152;EAS_AF=0.3363;AMR_AF=0.3602;AFR_AF=0.4909;EUR_AF=0.4056;SAS_AF=0.4949;AA=|||unknown(NO_COVERAGE);VT=INDEL
chr1    10235   rs540431307     T       TA      100     PASS    AC=6;AF=0.00119808;AN=5008;NS=2504;DP=78015;EAS_AF=0;AMR_AF=0.0014;AFR_AF=0;EUR_AF=0;SAS_AF=0.0051;AA=|||unknown(NO_COVERAGE);VT=INDEL
chr1    10352   rs555500075     T       TA      100     PASS    AC=2191;AF=0.4375;AN=5008;NS=2504;DP=88915;EAS_AF=0.4306;AMR_AF=0.4107;AFR_AF=0.4788;EUR_AF=0.4264;SAS_AF=0.4192;AA=|||unknown(NO_COVERAGE);VT=INDEL
chr1    10505   rs548419688     A       T       100     PASS    AC=1;AF=0.000199681;AN=5008;NS=2504;DP=9632;EAS_AF=0;AMR_AF=0;AFR_AF=0.0008;EUR_AF=0;SAS_AF=0;AA=.|||;VT=SNP
chr1    10506   rs568405545     C       G       100     PASS    AC=1;AF=0.000199681;AN=5008;NS=2504;DP=9676;EAS_AF=0;AMR_AF=0;AFR_AF=0.0008;EUR_AF=0;SAS_AF=0;AA=.|||;VT=SNP
chr1    10511   rs534229142     G       A       100     PASS    AC=1;AF=0.000199681;AN=5008;NS=2504;DP=9869;EAS_AF=0;AMR_AF=0.0014;AFR_AF=0;EUR_AF=0;SAS_AF=0;AA=.|||;VT=SNP