Add several example dataset and debug the project loading

.gitignore

 *.Rproj.user
 *.Rhistory
 *.RData
+.DS_Store
 .Rproj.user
 www/masque.png

.gitlab-ci.yml

 stages:
+  - build_conda
   - build_dev
   - build_master
-  - build_conda
+  
 
 services:
   - docker:dind
@@ -34,8 +35,7 @@ build_master:
     - docker login -u "$DOCKER_USER" -p "$DOCKER_PASS"
     - docker build -t aghozlane/shaman .
     - docker push aghozlane/shaman
-  except:
-    - dev
+  only:
     - master
 
 
@@ -54,6 +54,7 @@ build_conda:
     - conda install -y conda-verify
     - conda install -y anaconda-client
     - conda install -y conda-build
+    - conda install -y git
   script:
     - anaconda login --username "$DOCKER_USER" --password "$DOCKER_PASS"
     - conda build conda_inst

server.R

@@ -1444,10 +1444,10 @@ shinyServer(function(input, output,session) {
       reset("fileBiom")
       reset("fileTree")
       #PS = Project_status(values$masque_key,values$curdir)
-      values$biom_masque = paste(values$curdir,"www","masque","done",paste("file",values$masque_key,sep=""),paste("shaman_silva.biom",sep=""),sep= .Platform$file.sep)
-      values$tree_masque = paste(values$curdir,"www","masque","done",paste("file",values$masque_key,sep=""),paste("shaman_silva_tree.nhx",sep=""),sep= .Platform$file.sep)
+      values$biom_masque = paste(values$curdir,"www","masque","done",paste("file",values$masque_key,sep=""),paste("shaman_",DemoDataset[[1]][2],".biom",sep=""),sep= .Platform$file.sep)
+      values$tree_masque = paste(values$curdir,"www","masque","done",paste("file",values$masque_key,sep=""),paste("shaman_",DemoDataset[[1]][2],"_tree.nhx",sep=""),sep= .Platform$file.sep)
       #sendSweetAlert(messageId="DemoDataset", title = "Success", text = paste("Data of", DemoDataset[[1]][2], "were successfully loaded. You can go to statistical analysis section."), type = "success", html=TRUE)
-      sendSweetAlert(session, title = "Success", text = paste("Data of", DemoDataset[[1]][2], "were successfully loaded. You can go to statistical analysis section."), type = "success", html=TRUE)
+      sendSweetAlert(session, title = "Success", text = paste("Data of", DemoDataset[[1]][3], "were successfully loaded. You can go to statistical analysis section."), type = "success", html=TRUE)
       removeCssClass(class = 'pwdRED', selector = '#password_home')
       addCssClass(class = 'pwdGREEN', selector = '#password_home')
       hideElement("masque-form",anim=TRUE)
@@ -2248,7 +2248,6 @@ shinyServer(function(input, output,session) {
   
  observeEvent(input$confirmTarget,{
     target = NULL
-    values$biom_masque = paste(values$curdir,"www","masque","done",paste("file",values$masque_key,sep=""),paste("shaman_silva.biom",sep=""),sep= .Platform$file.sep)
     # Get the old biom
     if (!is.null(values$biom_masque) && file.exists(values$biom_masque)){ 
       tryCatch(read_biom(values$biom_masque)->data,

ui.R

@@ -522,7 +522,14 @@ function(request) {
                       selectInput("FileFormat","",c("Count table & taxonomy (*.csv or *.tsv)"="fileCounts","BIOM file"="fileBiom","Project number"="projnum"),selected="fileCounts"),
                       conditionalPanel(condition="input.FileFormat=='fileCounts'",
                                        checkboxInput("NoTaxoFile","No taxonomy table",value=FALSE),
-                                       selectInput("DemoDataset",h6(strong('Or select a dataset')),c("..."="...","ZymoBIOMICS mock 16S"=c("30a47fca2dc3|Volant et al. 2019 in review")),selected="...")#,
+                                       selectInput("DemoDataset",h6(strong('Or select a dataset')),
+                                                   c("..."="...",
+                                                     "ZymoBIOMICS mock 16S: Volant et al. 2019"=c("a1a9748bebd0|silva|Volant et al. 2019 in review"),
+                                                     "Afribiota: Vonaesch et al. 2018"=c("1be225fc935c7|silva|Vonaesch et al. 2018"),
+                                                     "DNA extraction protocols 16S: Angebault et al. 2018"=c("eec74b27d162|silva|Angebault et al. 2018"),
+                                                     "DNA extraction protocols ITS1: Angebault et al. 2018"=c("3580714197f5|unite|Angebault et al. 2018"),
+                                                     "Listeria: Quereda et al. 2016"=c("69207712064|silva|Quereda et al. 2016")),
+                                                   selected="...")#,
                                        #receiveSweetAlert(messageId = "DemoDataset")
                       ),
                       conditionalPanel(condition="input.FileFormat=='projnum'",

www/masque/done/file1be225fc935c7.json

+{"type": "16S", "phredthres": 20, "annotationstrand": "both", "aFmax": 0.945, "aPmin": 0.75, "aSmin": 0.98, "path": "/tmp/RtmpggfRsE/Masque_files", "aCmin": 0.785, "minreadlength": 50, "mail": "amine.ghozlane@pasteur.fr", "clusteringthreshold": 0.97, "aOmax": 0.865, "host": "hg38", "name": "file1be225fc935c7", "aPmax": 0.785, "clusteringstrand": "both", "minampliconlength": 50, "dreptype": "--derep_prefix", "maxampliconlength": 0, "data_history_name": "data_shaman_2186_108", "aOmin": 0.82, "aGmin": 0.945, "aKmin": 0.75, "aFmin": 0.865, "paired": false, "result_history_name": "shaman_2186_108", "mincorrect": 80, "minabundance": 4, "contaminant": "/tmp/RtmpggfRsE/file1be225fc935c7_contaminant.fasta", "aGmax": 0.98, "aCmax": 0.82}
\ No newline at end of file

www/masque/done/file1be225fc935c7/shaman_process_annotation.tsv

+Type	Count	Mean_length	Median_length
+Amplicon	13259690	246	249
+Dereplication	2903184	244	249
+Singleton_removed	172297	247	249
+Chimera_removed	117742	247	249
+OTU	2386	234	249
+silva_annotation	2375
+greengenes_annotation	2367
+rdp_annotation	2385

www/masque/done/file30a47fca2dc3.json

-{"contaminant": "/tmp/Rtmpimkesv/file873bc712cf0_contaminant.fasta", "data_history_name": "data_shaman_37694_0", "paired": true, "host": "", "type": "16S", "pattern_R1": "_R1", "result_history_name": "shaman_37694_0", "path_R2": "/tmp/Rtmpimkesv/Masque_files_R2", "mail": "amine.ghozlane@pasteur.fr", "name": "file873bc712cf0", "path_R1": "/tmp/Rtmpimkesv/Masque_files_R1"}
\ No newline at end of file

www/masque/done/file30a47fca2dc3/shaman_greengenes.biom

-{"id":null,"format":"Biological Observation Matrix 1.0.0-dev","format_url":"http://biom-format.org/documentation/format_versions/biom-1.0.html","type":"OTU table","generated_by":"biomformat 1.12.0","date":"2019-08-13 18:18:38","matrix_type":"dense","matrix_element_type":"int","shape":[63,21],"rows":[{"id":"OTU_1","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Listeriaceae","g__Bacteria","s__Firmicutes"]},{"id":"OTU_10","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Bacillaceae","g__Bacteria","s__Firmicutes"]},{"id":"OTU_11","metadata":["k__Bacteria","p__Cyanobacteria","c__4C0d-2","o__MLE1-12","f__Bacteria","g__Cyanobacteria","s__4C0d-2"]},{"id":"OTU_12","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Bacillaceae","g__Bacillus","s__Bacteria"]},{"id":"OTU_13","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Bacillaceae","g__Bacillus","s__Bacteria"]},{"id":"OTU_14","metadata":["k__Bacteria","p__Proteobacteria","c__Betaproteobacteria","o__Burkholderiales","f__Comamonadaceae","g__Bacteria","s__Proteobacteria"]},{"id":"OTU_15","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Bacteria","s__Proteobacteria"]},{"id":"OTU_16","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Lactobacillaceae","g__Lactobacillus","s__Bacteria"]},{"id":"OTU_17","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Lactobacillaceae","g__Lactobacillus","s__Bacteria"]},{"id":"OTU_18","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Lactobacillaceae","g__Lactobacillus","s__Bacteria"]},{"id":"OTU_19","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Lactobacillaceae","g__Lactobacillus","s__Bacteria"]},{"id":"OTU_2","metadata":["k__Bacteria","p__Proteobacteria","c__Alphaproteobacteria","o__Sphingomonadales","f__Sphingomonadaceae","g__Bacteria","s__Proteobacteria"]},{"id":"OTU_20","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Bacillaceae","g__Bacillus","s__Bacteria"]},{"id":"OTU_21","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Listeriaceae","g__Bacteria","s__Firmicutes"]},{"id":"OTU_22","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Salmonella","s__enterica"]},{"id":"OTU_23","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Bacillaceae","g__Bacillus","s__Bacteria"]},{"id":"OTU_24","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Pseudomonadales","f__Pseudomonadaceae","g__Pseudomonas","s__Bacteria"]},{"id":"OTU_25","metadata":["k__Bacteria","p__Bacteroidetes","c__Bacteroidia","o__Bacteroidales","f__S24-7","g__Bacteria","s__Bacteroidetes"]},{"id":"OTU_26","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Staphylococcaceae","g__Staphylococcus","s__aureus"]},{"id":"OTU_27","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Bacteria","s__Proteobacteria"]},{"id":"OTU_28","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Bacteria","s__Proteobacteria"]},{"id":"OTU_29","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Staphylococcaceae","g__Staphylococcus","s__aureus"]},{"id":"OTU_3","metadata":["k__Bacteria","p__Actinobacteria","c__Actinobacteria","o__Actinomycetales","f__Propionibacteriaceae","g__Propionibacterium","s__acnes"]},{"id":"OTU_30","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Bacillaceae","g__Bacteria","s__Firmicutes"]},{"id":"OTU_31","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Lactobacillaceae","g__Lactobacillus","s__Bacteria"]},{"id":"OTU_32","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Bacillaceae","g__Bacillus","s__Bacteria"]},{"id":"OTU_33","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Salmonella","s__enterica"]},{"id":"OTU_34","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Enterococcaceae","g__Enterococcus","s__Bacteria"]},{"id":"OTU_35","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Listeriaceae","g__Bacteria","s__Firmicutes"]},{"id":"OTU_36","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Listeriaceae","g__Bacteria","s__Firmicutes"]},{"id":"OTU_37","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Listeriaceae","g__Bacteria","s__Firmicutes"]},{"id":"OTU_38","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Pseudomonadales","f__Pseudomonadaceae","g__Pseudomonas","s__Bacteria"]},{"id":"OTU_39","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Staphylococcaceae","g__Staphylococcus","s__aureus"]},{"id":"OTU_4","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Staphylococcaceae","g__Staphylococcus","s__aureus"]},{"id":"OTU_40","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Salmonella","s__enterica"]},{"id":"OTU_41","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Salmonella","s__enterica"]},{"id":"OTU_42","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Listeriaceae","g__Bacteria","s__Firmicutes"]},{"id":"OTU_43","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Enterococcaceae","g__Enterococcus","s__Bacteria"]},{"id":"OTU_44","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Enterococcaceae","g__Enterococcus","s__Bacteria"]},{"id":"OTU_45","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_46","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_47","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_48","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_49","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_5","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_50","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_51","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_52","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_53","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_54","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_55","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_56","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_57","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_58","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_59","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_6","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_60","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_61","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_62","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_63","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_7","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_8","metadata":["k__","p__","c__","o__","f__","g__","s__"]},{"id":"OTU_9","metadata":["k__","p__","c__","o__","f__","g__","s__"]}],"columns":[{"id":"1ng.25cycles.1_S38_L001_001","metadata":{"StartDNA":"1ng","CyclePCR":"25cycles"}},{"id":"1ng.25cycles.2_S39_L001_001","metadata":{"StartDNA":"1ng","CyclePCR":"25cycles"}},{"id":"1ng.25cycles.3_S40_L001_001","metadata":{"StartDNA":"1ng","CyclePCR":"25cycles"}},{"id":"1ng.30cycles.1_S50_L001_001","metadata":{"StartDNA":"1ng","CyclePCR":"30cycles"}},{"id":"1ng.30cycles.2_S51_L001_001","metadata":{"StartDNA":"1ng","CyclePCR":"30cycles"}},{"id":"1ng.30cycles.3_S52_L001_001","metadata":{"StartDNA":"1ng","CyclePCR":"30cycles"}},{"id":"20ng.20cycles.1_S14_L001_001","metadata":{"StartDNA":"20ng","CyclePCR":"20cycles"}},{"id":"20ng.20cycles.2_S15_L001_001","metadata":{"StartDNA":"20ng","CyclePCR":"20cycles"}},{"id":"20ng.20cycles.3_S16_L001_001","metadata":{"StartDNA":"20ng","CyclePCR":"20cycles"}},{"id":"20ng.25cycles.1_S2_L001_001","metadata":{"StartDNA":"20ng","CyclePCR":"25cycles"}},{"id":"20ng.25cycles.2_S3_L001_001","metadata":{"StartDNA":"20ng","CyclePCR":"25cycles"}},{"id":"20ng.25cycles.3_S4_L001_001","metadata":{"StartDNA":"20ng","CyclePCR":"25cycles"}},{"id":"5ng.25cycles.1_S26_L001_001","metadata":{"StartDNA":"5ng","CyclePCR":"25cycles"}},{"id":"5ng.25cycles.2_S27_L001_001","metadata":{"StartDNA":"5ng","CyclePCR":"25cycles"}},{"id":"5ng.25cycles.3_S28_L001_001","metadata":{"StartDNA":"5ng","CyclePCR":"25cycles"}},{"id":"zero5ng.25cycles.1_S62_L001_001","metadata":{"StartDNA":"05ng","CyclePCR":"25cycles"}},{"id":"zero5ng.25cycles.2_S63_L001_001","metadata":{"StartDNA":"05ng","CyclePCR":"25cycles"}},{"id":"zero5ng.25cycles.3_S64_L001_001","metadata":{"StartDNA":"05ng","CyclePCR":"25cycles"}},{"id":"zero5ng.30cycles.1_S74_L001_001","metadata":{"StartDNA":"05ng","CyclePCR":"30cycles"}},{"id":"zero5ng.30cycles.2_S75_L001_001","metadata":{"StartDNA":"05ng","CyclePCR":"30cycles"}},{"id":"zero5ng.30cycles.3_S76_L001_001","metadata":{"StartDNA":"05ng","CyclePCR":"30cycles"}}],"data":[[17452,27133,22628,34080,44295,26503,37448,44573,39161,39050,32932,40607,25728,29573,31779,37086,38992,27499,43560,25485,6836],[13,0,12,22,3,5,18,18,11,24,1,12,37,0,22,22,4,16,43,8,3],[2,1,3,28,1,2,10,11,1,11,8,8,16,6,20,5,1,9,10,13,3],[11,29,14,55,74,41,35,48,20,45,75,62,49,65,41,18,43,19,52,52,4],[20,40,34,76,116,38,35,70,51,70,113,79,32,74,72,43,64,24,77,48,5],[0,6,3,8,9,8,0,0,0,0,0,0,0,3,0,12,18,5,13,6,0],[23,62,30,79,149,57,39,72,59,86,106,100,62,47,51,51,67,34,63,90,10],[0,2,0,4,4,0,6,3,2,5,3,1,1,2,6,1,0,2,9,5,0],[5,0,0,4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\ No newline at end of file

www/masque/done/file30a47fca2dc3/shaman_otu_table.tsv

-#OTU ID	1ng-25cycles-1_S38_L001_001	1ng-25cycles-2_S39_L001_001	1ng-25cycles-3_S40_L001_001	1ng-30cycles-1_S50_L001_001	1ng-30cycles-2_S51_L001_001	1ng-30cycles-3_S52_L001_001	20ng-20cycles-1_S14_L001_001	20ng-20cycles-2_S15_L001_001	20ng-20cycles-3_S16_L001_001	20ng-25cycles-1_S2_L001_001	20ng-25cycles-2_S3_L001_001	20ng-25cycles-3_S4_L001_001	5ng-25cycles-1_S26_L001_001	5ng-25cycles-2_S27_L001_001	5ng-25cycles-3_S28_L001_001	zero5ng-25cycles-1_S62_L001_001	zero5ng-25cycles-2_S63_L001_001	zero5ng-25cycles-3_S64_L001_001	zero5ng-30cycles-1_S74_L001_001	zero5ng-30cycles-2_S75_L001_001	zero5ng-30cycles-3_S76_L001_001
-OTU_1	17452	27133	22628	34080	44295	26503	37448	44573	39161	39050	32932	40607	25728	29573	31779	37086	38992	27499	43560	25485	6836
-OTU_10	13	0	12	22	3	5	18	18	11	24	1	12	37	0	22	22	4	16	43	8	3
-OTU_11	2	1	3	28	1	2	10	11	1	11	8	8	16	6	20	5	1	9	10	13	3
-OTU_12	11	29	14	55	74	41	35	48	20	45	75	62	49	65	41	18	43	19	52	52	4
-OTU_13	20	40	34	76	116	38	35	70	51	70	113	79	32	74	72	43	64	24	77	48	5
-OTU_14	0	6	3	8	9	8	0	0	0	0	0	0	0	3	0	12	18	5	13	6	0
-OTU_15	23	62	30	79	149	57	39	72	59	86	106	100	62	47	51	51	67	34	63	90	10
-OTU_16	0	2	0	4	4	0	6	3	2	5	3	1	1	2	6	1	0	2	9	5	0
-OTU_17	5	0	0	4	4	0	0	1	2	4	0	7	5	1	1	0	0	1	5	0	0
-OTU_18	3	1	0	14	4	0	4	4	9	2	6	4	6	5	3	1	0	1	8	5	2
-OTU_19	1	4	3	10	4	2	0	0	1	0	0	0	0	2	1	14	6	1	15	5	3
-OTU_2	15860	23646	22078	29667	43537	24072	36479	47320	38806	32012	25103	30496	26135	34793	32500	38523	42830	30774	39737	28634	4774
-OTU_20	0	0	0	0	5	1	1	0	2	1	0	5	4	0	0	0	1	1	7	0	0
-OTU_21	13	23	11	54	78	31	13	60	44	66	66	57	22	51	53	22	33	17	61	37	5
-OTU_22	10	17	12	34	56	32	14	23	18	55	38	49	20	36	16	13	32	6	53	21	7
-OTU_23	0	1	0	4	1	1	0	0	0	2	1	1	7	0	1	3	3	0	2	4	0
-OTU_24	0	0	0	3	0	2	0	3	7	2	0	0	4	0	1	3	0	0	2	2	0
-OTU_25	18	42	20	68	88	57	37	48	35	86	90	68	52	80	65	32	59	20	80	61	11
-OTU_26	1	1	1	7	1	0	0	0	1	0	0	0	5	1	0	2	2	0	3	1	0
-OTU_27	1	0	1	1	0	0	0	3	1	1	1	0	0	3	2	0	0	2	0	0	0
-OTU_28	0	0	0	2	0	1	0	0	0	0	0	1	0	2	0	1	0	0	1	2	0
-OTU_29	1	0	0	0	0	1	4	1	2	3	0	1	1	4	0	1	2	1	7	6	1
-OTU_3	13125	22105	17509	23529	36814	19721	30956	43056	33082	25061	23471	26121	20873	27980	28509	32630	38907	27115	30649	23025	3775
-OTU_30	2	3	0	2	0	2	1	2	0	1	0	1	0	0	0	0	0	2	2	0	0
-OTU_31	1	0	0	2	2	0	0	0	0	2	2	1	0	1	1	0	0	1	4	0	0
-OTU_32	31	67	36	143	204	64	86	131	66	124	135	114	86	116	117	74	109	60	189	86	20
-OTU_33	111	221	114	414	591	245	197	336	241	391	448	394	231	379	317	186	311	109	506	319	61
-OTU_34	0	1	0	0	1	0	0	2	0	0	3	0	2	2	1	2	2	0	2	1	0
-OTU_35	0	0	0	0	3	0	4	1	0	2	0	2	0	0	0	0	0	0	2	0	0
-OTU_36	0	0	0	0	1	0	0	0	0	0	0	0	2	2	0	0	0	0	4	2	0
-OTU_37	1	3	2	4	7	1	5	0	0	0	2	0	0	1	5	1	3	1	2	4	0
-OTU_38	225	379	195	805	1014	423	387	669	422	858	826	711	406	628	505	341	511	249	1032	668	30
-OTU_39	5	2	1	1	4	3	0	0	0	4	1	0	2	3	4	0	0	0	5	0	0
-OTU_4	13337	23359	16051	28762	41768	20948	35150	39582	31692	31582	26212	25297	25494	32339	34775	39042	38318	25859	39136	26583	2790
-OTU_40	0	0	5	2	0	0	0	2	2	1	0	2	0	0	0	2	0	0	3	0	0
-OTU_41	0	0	0	0	1	0	0	3	1	0	2	0	0	0	0	0	0	1	3	1	0
-OTU_42	2	4	1	16	15	8	2	4	5	33	28	9	9	5	8	4	1	0	20	15	3
-OTU_43	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	2	3	0	10	0
-OTU_44	195	379	163	976	1055	534	504	662	366	1009	867	564	595	730	708	421	503	222	1225	583	85
-OTU_45	76	149	84	320	410	129	150	252	132	329	309	278	162	237	190	101	194	94	409	240	22
-OTU_46	0	0	0	2	0	0	0	0	0	0	0	1	3	0	1	0	0	1	0	0	0
-OTU_47	0	0	2	0	0	1	0	0	0	1	0	2	0	0	0	0	0	0	0	0	0
-OTU_48	0	0	0	0	0	0	0	0	0	0	0	0	3	0	0	2	0	0	0	0	0
-OTU_49	0	0	2	0	0	0	0	0	0	0	0	0	0	0	0	6	1	1	5	2	0
-OTU_5	11531	20057	16044	23534	35804	15246	26747	35766	29197	26834	24773	29176	19939	27576	27496	27523	33651	24155	31504	22764	1540
-OTU_50	0	0	0	0	0	0	0	0	0	5	0	0	0	0	1	1	0	0	0	0	0
-OTU_51	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	7	0	0	0
-OTU_52	0	0	0	2	0	0	0	0	0	3	0	0	0	0	0	0	0	0	3	0	0
-OTU_53	0	0	1	2	0	0	3	3	3	1	1	1	5	2	0	1	0	0	6	3	0
-OTU_54	36	50	24	100	95	47	64	74	46	91	89	111	56	84	59	37	45	20	140	83	3
-OTU_55	249	450	266	1061	1311	492	477	712	443	1093	933	930	542	916	663	398	548	274	1285	737	49
-OTU_56	1	0	0	2	0	0	0	0	2	0	0	2	1	1	1	1	2	2	2	3	0
-OTU_57	41	59	27	171	185	84	54	91	74	173	163	170	95	90	127	30	76	61	200	139	10
-OTU_58	5	5	6	17	27	17	11	5	12	25	28	24	15	11	25	3	6	6	45	18	1
-OTU_59	1	0	0	0	0	0	0	0	0	2	0	0	2	0	0	0	0	0	0	0	0
-OTU_6	8183	13707	10964	16276	24625	12822	18729	23977	19123	17982	17070	19830	13793	18802	17884	18929	23174	15187	21971	15719	2336
-OTU_60	17	44	12	101	137	71	36	100	59	94	86	118	59	90	71	46	51	32	122	72	17
-OTU_61	1	1	0	9	6	10	7	5	3	5	6	8	1	8	1	1	5	1	9	4	2
-OTU_62	3	3	2	42	29	14	1	9	1	37	24	16	3	15	7	5	1	1	25	12	2
-OTU_63	0	2	0	2	0	0	0	0	0	0	0	3	0	0	1	0	0	0	6	0	0
-OTU_7	6506	11883	8080	11966	19193	9309	14386	19327	15146	13448	12560	13118	9135	12995	13890	15038	18146	11681	15168	11666	2165
-OTU_8	5082	9047	7033	10887	16871	6722	12362	18325	14321	11921	11802	13621	9812	13294	13394	12133	15601	9962	15972	11023	651
-OTU_9	7	5	17	39	8	6	29	26	19	32	1	22	47	6	51	17	0	22	58	17	3

www/masque/done/file30a47fca2dc3/shaman_process_annotation.tsv

-Type	Count	Mean_length	Median_length
-Amplicon	4248638	428	427
-Dereplication	1629789	428	427
-Singleton_removed	40537	429	427
-Chimera_removed	34496	429	427
-OTU	63	354	427
-silva_annotation	39
-greengenes_annotation	39
-rdp_annotation	62