diff --git a/api/api.go b/api/api.go
index 6c09b31..e8f9059 100644
--- a/api/api.go
+++ b/api/api.go
@@ -1,6 +1,7 @@
 package api
 
 import (
+	"bytes"
 	"fmt"
 	"log"
 	"os"
@@ -359,6 +360,10 @@ func collect(v interfaces.IVariant, rels []interfaces.Relatable, src *Source, st
 			if !ok {
 				continue
 			}
+			if src.Column-1 >= len(o.Fields) {
+				log.Println(src)
+				log.Println(string(bytes.Join(o.Fields, []byte{'\t'})))
+			}
 			sval := string(o.Fields[src.Column-1])
 			if src.IsNumber() {
 
diff --git a/docs/examples/gff_sv/genes.gff3.gz b/docs/examples/gff_sv/genes.gff3.gz
new file mode 100644
index 0000000..6bbf2a2
Binary files /dev/null and b/docs/examples/gff_sv/genes.gff3.gz differ
diff --git a/docs/examples/gff_sv/genes.gff3.gz.tbi b/docs/examples/gff_sv/genes.gff3.gz.tbi
new file mode 100644
index 0000000..02edbf1
Binary files /dev/null and b/docs/examples/gff_sv/genes.gff3.gz.tbi differ
diff --git a/docs/examples/gff_sv/gff_gene_name.lua b/docs/examples/gff_sv/gff_gene_name.lua
new file mode 100644
index 0000000..30f91e4
--- /dev/null
+++ b/docs/examples/gff_sv/gff_gene_name.lua
@@ -0,0 +1,27 @@
+function gff_to_gene_name(infos, name_field)
+    if infos == nil or #infos == 0 then
+        return nil
+    end
+    local result = {}
+
+    for i=1,#infos do
+        info = infos[i]
+        local s, e = string.find(info, name_field .. "=")
+        if s ~= nil then
+            name = info:sub(e + 1)
+            s, e = string.find(name, ";")
+            if e == nil then
+                e = name:len()
+            else
+                e = e - 1
+            end
+
+            result[name:sub(0, e)] = 1
+        end
+    end
+    local keys = {}
+    for k, v in pairs(result) do
+        keys[#keys+1] = k
+    end
+    return table.concat(keys,",")
+end
diff --git a/docs/examples/gff_sv/gff_sv.conf b/docs/examples/gff_sv/gff_sv.conf
new file mode 100644
index 0000000..a1b87ef
--- /dev/null
+++ b/docs/examples/gff_sv/gff_sv.conf
@@ -0,0 +1,5 @@
+[[annotation]]
+file="sample.gff3.gz"
+columns=[9]
+names=["xgene"]
+ops=["lua:gff_to_gene_name(vals, 'gene_name')"]
diff --git a/docs/examples/gff_sv/gff_sv.md b/docs/examples/gff_sv/gff_sv.md
new file mode 100644
index 0000000..4c62147
--- /dev/null
+++ b/docs/examples/gff_sv/gff_sv.md
@@ -0,0 +1,49 @@
+Annotating with GFF
+===================
+
+GFF often contains the location of genes and features.
+It has a column that contains key=value pairs like the INFO
+field in a VCF. `vcfanno` does not support these natively,
+but one can access particular fields using lua. This is an example of
+how to do this.
+
+Given a variant in `sample.vcf` like:
+```
+22	1000	DEL000SUR	N	<DEL>	.	PASS	END=1051060
+```
+
+And genomic features annotated in `genes.gff3.gz`:
+
+```
+22	ensembl_havana	gene	69091	70008	.	+	.	ID=ENST00000335137;geneID=ENSG00000186092;gene_name=OR4F5
+22	ensembl	mRNA	182393	184158	.	+	.	ID=ENST00000624431;geneID=ENSG00000279928;gene_name=FO538757.3
+22	ensembl	mRNA	184923	195411	.	-	.	ID=ENST00000623834;geneID=ENSG00000279457;gene_name=FO538757.2
+22	ensembl	mRNA	184925	195411	.	-	.	ID=ENST00000623083;geneID=ENSG00000279457;gene_name=FO538757.2
+22	ensembl	mRNA	184927	200322	.	-	.	ID=ENST00000624735;geneID=ENSG00000279457;gene_name=FO538757.2
+22	ensembl_havana	mRNA	450740	451678	.	-	.	ID=ENST00000426406;geneID=ENSG00000278566;gene_name=OR4F29
+22	ensembl_havana	mRNA	685716	686654	.	-	.	ID=ENST00000332831;geneID=ENSG00000273547;gene_name=OR4F16
+22	havana	mRNA	924880	939291	.	+	.	ID=ENST00000420190;geneID=ENSG00000187634;gene_name=SAMD11
+22	havana	mRNA	925150	935793	.	+	.	ID=ENST00000437963;geneID=ENSG00000187634;gene_name=SAMD11
+...
+```
+
+We can write a conf file [gff_sv.conf](https://github.com/brentp/vcfanno/blob/master/docs/examples/gff_sv/gff_sv.conf)
+```
+[[annotation]]
+file="genes.gff3.gz"
+columns=[9]
+names=["gene"]
+ops=["lua:gff_to_gene_name(vals, 'gene_name')"]
+```
+
+This will extract the full text of the 9th column. Then we can use some lua to get just the `gene_name` field.
+The lua uses a table so each observed gene is reported only once.
+This is in [gff_sv.lua](https://github.com/brentp/vcfanno/blob/master/docs/examples/gff_sv/gff_sv.lua)
+
+
+Then we can run `vcfanno` as:
+```
+vcfanno -lua gff_sv.lua gff_sv.conf sample.vcf
+```
+
+and `gene=FO538757.3,OR4F29,FO538757.2,OR4F16,OR4F5` is added to the INFO. The lua allows the user to do more complex things like only reporting genes, or taking uniq values.
diff --git a/docs/examples/gff_sv/sample.vcf b/docs/examples/gff_sv/sample.vcf
new file mode 100644
index 0000000..afdbdee
--- /dev/null
+++ b/docs/examples/gff_sv/sample.vcf
@@ -0,0 +1,3411 @@
+##fileformat=VCFv4.1
+##FILTER=<ID=PASS,Description="All filters passed">
+##source=SURVIVOR
+##fileDate=20180620
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+##contig=<ID=chrUn_KN707976v1_decoy,length=1126>
+##contig=<ID=chrUn_KN707977v1_decoy,length=1101>
+##contig=<ID=chrUn_KN707978v1_decoy,length=1101>
+##contig=<ID=chrUn_KN707979v1_decoy,length=2648>
+##contig=<ID=chrUn_KN707980v1_decoy,length=2973>
+##contig=<ID=chrUn_KN707981v1_decoy,length=2520>
+##contig=<ID=chrUn_KN707982v1_decoy,length=2318>
+##contig=<ID=chrUn_KN707983v1_decoy,length=2606>
+##contig=<ID=chrUn_KN707984v1_decoy,length=2205>
+##contig=<ID=chrUn_KN707985v1_decoy,length=2929>
+##contig=<ID=chrUn_KN707986v1_decoy,length=3869>
+##contig=<ID=chrUn_KN707987v1_decoy,length=1117>
+##contig=<ID=chrUn_KN707988v1_decoy,length=2960>
+##contig=<ID=chrUn_KN707989v1_decoy,length=1009>
+##contig=<ID=chrUn_KN707990v1_decoy,length=4048>
+##contig=<ID=chrUn_KN707991v1_decoy,length=2193>
+##contig=<ID=chrUn_KN707992v1_decoy,length=1830>
+##contig=<ID=chrX,length=156040895>
+##contig=<ID=chrX_KI270880v1_alt,length=284869>
+##contig=<ID=chrX_KI270881v1_alt,length=144206>
+##contig=<ID=chrX_KI270913v1_alt,length=274009>
+##contig=<ID=chrY,length=57227415>
+##contig=<ID=chrY_KI270740v1_random,length=37240>
+##ALT=<ID=DEL,Description="Deletion">
+##ALT=<ID=DUP,Description="Duplication">
+##ALT=<ID=INV,Description="Inversion">
+##ALT=<ID=BND,Description="Translocation">
+##ALT=<ID=INS,Description="Insertion">
+##INFO=<ID=CIEND,Number=2,Type=Integer,Description="PE confidence interval around END">
+##INFO=<ID=CIPOS,Number=2,Type=Integer,Description="PE confidence interval around POS">
+##INFO=<ID=CHR2,Number=1,Type=String,Description="Chromosome for END coordinate in case of a translocation">
+##INFO=<ID=END,Number=1,Type=Integer,Description="End position of the structural variant">
+##INFO=<ID=SVLEN,Number=1,Type=Integer,Description="End position of the structural variant">
+##INFO=<ID=MAPQ,Number=1,Type=Integer,Description="Median mapping quality of paired-ends">
+##INFO=<ID=RE,Number=1,Type=Integer,Description="read support">
+##INFO=<ID=IMPRECISE,Number=0,Type=Flag,Description="Imprecise structural variation">
+##INFO=<ID=PRECISE,Number=0,Type=Flag,Description="Precise structural variation">
+##INFO=<ID=AVGLEN,Number=1,Type=Integer,Description="Length of the SV">
+##INFO=<ID=SVMETHOD,Number=1,Type=String,Description="Vector of samples supporting the SV.">
+##INFO=<ID=SVTYPE,Number=1,Type=String,Description="Type of the SV.">
+##INFO=<ID=SUPP_VEC,Number=1,Type=String,Description="Number of samples supporting the variant.">
+##INFO=<ID=SUPP,Number=1,Type=String,Description="Previous support vector">
+##INFO=<ID=STRANDS,Number=1,Type=String,Description="Indicating the direction of the reads with respect to the type and breakpoint.">
+##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
+##FORMAT=<ID=LN,Number=1,Type=Integer,Description="predicted length">
+##FORMAT=<ID=DR,Number=1,Type=Integer,Description="# supporting reference,variant reads in that order">
+##FORMAT=<ID=ST,Number=1,Type=String,Description="Strand of SVs">
+##FORMAT=<ID=TY,Number=1,Type=String,Description="Types">
+##FORMAT=<ID=CO,Number=1,Type=String,Description="Coordinates">
+##FORMAT=<ID=PSV,Number=1,Type=String,Description="Previous support vector">
+##INFO=<ID=SAS,Number=.,Type=Float,Description="Variant frequency in South Asian samples">
+##INFO=<ID=FIN,Number=.,Type=Float,Description="Variant frequency in Finnish samples">
+##INFO=<ID=HIS,Number=.,Type=Float,Description="Variant frequency in Hispanic samples">
+##INFO=<ID=WHS,Number=.,Type=Float,Description="Variant frequency in white Hispanic samples">
+##INFO=<ID=AFM,Number=.,Type=Float,Description="Variant frequency in African American samples">
+##INFO=<ID=EAS,Number=.,Type=Float,Description="Variant frequency in East Asian samples">
+##INFO=<ID=BNH,Number=.,Type=Float,Description="Variant frequency in black non-Hispanic samples">
+##INFO=<ID=WHT,Number=.,Type=Float,Description="Variant frequency in white samples">
+##INFO=<ID=WNH,Number=.,Type=Float,Description="Variant frequency in white non-Hispanic samples">
+##INFO=<ID=SOL,Number=.,Type=Float,Description="Variant frequency in unlabeled samples, assumed to be SOL">
+##bcftools_annotateVersion=1.6+htslib-1.6
+##bcftools_annotateCommand=annotate -c CHROM,POS,-,REF,ALT,-,FIN,WHS,HIS,AFM,WHT,BNH,EAS,SAS,WNH,SOL -h raw/merge_20180620/eth_freq.hdr -a data/merge_20180620/ethnicity_annotations/chr22.eth.bed.gz -O z /stornext/snfs5/next-gen/scratch/ajmansfi/ccdg_cvd_merge_population_sv_paper/data/merge_20180620/id_to_alt/chr22.id_into_alt.vcf.gz; Date=Thu Jul 26 18:29:16 2018
+#CHROM	POS	ID	REF	ALT	QUAL	FILTER	INFO	FORMAT	02AD4429.final.survivor.vcf
+22	1000	DEL000SUR	N	<DEL>	.	PASS	SUPP=3053;AVGLEN=1;SVTYPE=DEL;SVMETHOD=SURVIVORv2;CHR2=chr22;SVLEN=900000;END=900000;CIPOS=0,0;CIEND=-400,0;STRANDS=+-;FIN=0.0600801;WHS=0.118952;HIS=0.146651;AFM=0.0345487;WHT=0.164262;BNH=0.0482815;EAS=0.256145;SAS=0.0918919;WNH=0.0984299;SOL=0.0792755	GT:PSV:LN:DR:ST:TY:CO	1/1:0010000:10510600:0,0:+-:DEL:chr22_1-chr22_10510600
diff --git a/mkdocs.yml b/mkdocs.yml
index 611d206..7f475e0 100644
--- a/mkdocs.yml
+++ b/mkdocs.yml
@@ -9,5 +9,6 @@ pages:
     - ClinvarExac: examples/clinvar_exac.md
     - CADD: examples/cadd.md
     - ExAC-Combine: examples/exac_combine/exac_combine.md
+    - SV + GFF: examples/gff_sv/gff_sv.md
 theme: cinder