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

www/masque/done/file30a47fca2dc3/shaman_process_build.tsv

-sample	Raw_reads_fwd	Raw_mean_length_fwd	Raw_median_length_fwd	Raw_reads_rev	Raw_mean_length_rev	Raw_median_length_rev	Trimmed	Trimmed_fwd	Trimmed_rev	Removed	Removed_fwd	Removed_rev	Filtered_reads_fwd	Filtered_mean_length_fwd	Filtered_median_length_fwd	Filtered_reads_rev	Filtered_mean_length_rev	Filtered_median_length_rev	Combined pairs	Uncombined pairs	Selected_dereplication	Selected_singleton	Selected_chimera	Selected_otu	Mapped_reads	Mapping_percent_combined
-5ng-25cycles-1_S26_L001_001	216807	300	301	216807	300	300	403438	196888	206550	27842	17587	10255	192017	265	277	192017	227	231	167270	192017	60409	1507	1277	5	153559	79.97
-20ng-25cycles-1_S2_L001_001	302678	300	301	302678	300	300	560043	274679	285364	42410	25097	17313	265513	265	277	265513	224	229	228922	265513	90528	2208	1749	5	202669	76.33
-1ng-30cycles-1_S50_L001_001	275152	300	301	275152	300	300	509447	250179	259268	37693	21809	15884	242096	265	277	242096	222	227	209033	242096	84557	1998	1542	7	183410	75.76
-zero5ng-25cycles-1_S62_L001_001	308283	300	301	308283	300	300	569407	277786	291621	43427	26767	16660	270219	265	277	270219	225	230	233528	270219	82353	2133	1951	2	222829	82.46
-1ng-25cycles-3_S40_L001_001	172137	300	301	172137	300	300	315854	154559	161295	26482	15642	10840	149233	265	277	149233	223	227	128265	149233	48587	1285	1172	1	121491	81.41
-5ng-25cycles-3_S28_L001_001	285903	300	301	285903	300	300	531229	257695	273534	37412	25043	12369	252430	264	277	252430	229	234	220357	252430	77958	1986	1662	4	203446	80.6
-zero5ng-25cycles-2_S63_L001_001	352123	300	301	352123	300	300	648535	318719	329816	50482	28176	22306	308459	267	277	308459	221	226	266924	308459	98469	2510	2256	2	252325	81.8
-zero5ng-25cycles-3_S64_L001_001	236495	300	301	236495	300	300	437038	212481	224557	33097	21161	11936	207488	265	277	207488	227	232	180797	207488	62110	1659	1557	2	173561	83.65
-zero5ng-30cycles-1_S74_L001_001	359368	300	301	359368	300	300	665454	326768	338686	49132	28451	20681	316575	266	277	316575	223	227	274564	316575	105773	2526	1974	7	243522	76.92
-1ng-25cycles-2_S39_L001_001	225513	300	301	225513	300	300	410838	203514	207324	37100	18912	18188	193922	267	277	193922	218	217	165528	193922	67393	1678	1445	2	152993	78.89
-20ng-20cycles-1_S14_L001_001	297586	300	301	297586	300	300	550934	268644	282290	40695	25399	15296	261634	265	277	261634	226	231	226892	261634	79872	2069	1860	3	214491	81.98
-1ng-30cycles-3_S52_L001_001	256766	300	301	256766	300	300	453161	223254	229907	58344	31485	26859	206824	257	272	206824	208	205	154532	206824	86516	1969	1688	3	137773	66.61
-20ng-25cycles-3_S4_L001_001	296908	300	301	296908	300	300	549201	268361	280840	41730	25666	16064	260316	265	277	260316	226	231	226248	260316	86241	2126	1726	2	202205	77.68
-zero5ng-30cycles-2_S75_L001_001	242911	300	301	242911	300	300	449556	221480	228076	33397	18562	14835	213997	267	278	213997	222	227	186286	213997	69094	1759	1455	3	168284	78.64
-20ng-25cycles-2_S3_L001_001	269896	300	301	269896	300	300	497132	245483	251649	39492	21246	18246	235824	267	277	235824	221	225	203843	235824	82805	2068	1612	4	178385	75.64
-20ng-20cycles-3_S16_L001_001	306702	300	301	306702	300	300	567042	275507	291535	42771	27605	15166	269014	265	277	269014	228	233	234694	269014	80070	2038	1839	3	222691	82.78
-zero5ng-30cycles-3_S76_L001_001	132333	300	301	132333	300	300	183132	106023	77109	80943	25722	55221	65823	247	263	65823	174	177	29501	65823	23219	370	323	1	25229	38.33
-20ng-20cycles-2_S15_L001_001	386487	300	301	386487	300	300	714269	350082	364187	53920	31621	22299	339401	266	277	339401	223	228	293514	339401	106564	2767	2482	3	275380	81.14
-1ng-30cycles-2_S51_L001_001	391843	300	301	391843	300	300	724875	357756	367119	53718	28996	24722	345232	267	277	345232	221	226	299176	345232	117753	2869	2373	3	268610	77.81
-5ng-25cycles-2_S27_L001_001	284620	300	301	284620	300	300	528610	259384	269226	36853	21459	15394	252210	267	277	252210	224	229	219794	252210	80454	2038	1683	1	201061	79.72
-1ng-25cycles-1_S38_L001_001	133794	300	301	133794	300	300	245147	120830	124317	20848	11371	9477	115918	265	277	115918	220	223	98970	115918	39064	974	870	0	92208	79.55

www/masque/done/file30a47fca2dc3/shaman_silva.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 18:17:11","matrix_type":"dense","matrix_element_type":"int","shape":[63,21],"rows":[{"id":"OTU_1","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Salmonella","s__Salmonella enterica"]},{"id":"OTU_10","metadata":["k__Bacteria","p__Proteobacteria","c__Alphaproteobacteria","o__Sphingomonadales","f__Sphingomonadaceae","g__Sphingomonas","s__Sphingomonas sp."]},{"id":"OTU_11","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Listeriaceae","g__Listeria","s__Listeria marthii"]},{"id":"OTU_12","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Staphylococcaceae","g__Staphylococcus","s__Bacteria"]},{"id":"OTU_13","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Salmonella","s__Salmonella enterica subsp. enterica serovar Agona str. 47.E.09"]},{"id":"OTU_14","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Salmonella","s__Salmonella enterica subsp. enterica serovar Agona str. 47.E.09"]},{"id":"OTU_15","metadata":["k__Bacteria","p__Cyanobacteria","c__Melainabacteria","o__Obscuribacterales","f__Bacteria","g__Cyanobacteria","s__Melainabacteria"]},{"id":"OTU_16","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Listeriaceae","g__Listeria","s__Brochothrix sp. TM5_5"]},{"id":"OTU_17","metadata":["k__Bacteria","p__Bacteroidetes","c__Bacteroidia","o__Bacteroidales","f__Muribaculaceae","g__Bacteria","s__Bacteroidetes"]},{"id":"OTU_18","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Escherichia-Shigella","s__Bacteria"]},{"id":"OTU_19","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Listeriaceae","g__Listeria","s__Listeria monocytogenes"]},{"id":"OTU_2","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Listeriaceae","g__Listeria","s__Listeria monocytogenes"]},{"id":"OTU_20","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Listeriaceae","g__Listeria","s__Listeria monocytogenes"]},{"id":"OTU_21","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Lactobacillaceae","g__Lactobacillus","s__Lactobacillus fermentum"]},{"id":"OTU_22","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Pseudomonadales","f__Pseudomonadaceae","g__Pseudomonas","s__Bacteria"]},{"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__Firmicutes","c__Bacilli","o__Bacillales","f__Bacillaceae","g__Bacillus","s__Bacteria"]},{"id":"OTU_25","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Pseudomonadales","f__Pseudomonadaceae","g__Pseudomonas","s__Bacteria"]},{"id":"OTU_26","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Escherichia-Shigella","s__Escherichia coli"]},{"id":"OTU_27","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Escherichia-Shigella","s__Escherichia coli"]},{"id":"OTU_28","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Bacillaceae","g__Terribacillus","s__Terribacillus aidingensis"]},{"id":"OTU_29","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Lactobacillaceae","g__Lactobacillus","s__uncultured Bacillus sp."]},{"id":"OTU_3","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Bacillaceae","g__Bacillus","s__Bacillus acidicola"]},{"id":"OTU_30","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Enterobacteriales","f__Enterobacteriaceae","g__Salmonella","s__Salmonella sp."]},{"id":"OTU_31","metadata":["k__Bacteria","p__Proteobacteria","c__Gammaproteobacteria","o__Betaproteobacteriales","f__Burkholderiaceae","g__Pelomonas","s__uncultured Comamonadaceae bacterium"]},{"id":"OTU_32","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Lactobacillaceae","g__Lactobacillus","s__Lactobacillus sp. 2011_Ileo_VSA_C5"]},{"id":"OTU_33","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Lactobacillaceae","g__Lactobacillus","s__Lactobacillus sp. 2011_Ileo_VSA_C5"]},{"id":"OTU_34","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Enterococcaceae","g__Enterococcus","s__Enterococcus faecalis"]},{"id":"OTU_35","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Staphylococcaceae","g__Staphylococcus","s__Staphylococcus aureus"]},{"id":"OTU_36","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Staphylococcaceae","g__Staphylococcus","s__Staphylococcus aureus"]},{"id":"OTU_37","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Enterococcaceae","g__Enterococcus","s__Enterococcus faecalis"]},{"id":"OTU_38","metadata":["k__Bacteria","p__Actinobacteria","c__Actinobacteria","o__Propionibacteriales","f__Propionibacteriaceae","g__Cutibacterium","s__Cutibacterium acnes"]},{"id":"OTU_39","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Bacillaceae","g__Bacteria","s__Firmicutes"]},{"id":"OTU_4","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Listeriaceae","g__Listeria","s__Listeria monocytogenes"]},{"id":"OTU_40","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Bacillaceae","g__Bacillus","s__Bacteria"]},{"id":"OTU_41","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Enterococcaceae","g__Enterococcus","s__Bacteria"]},{"id":"OTU_42","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Staphylococcaceae","g__Staphylococcus","s__Bacteria"]},{"id":"OTU_43","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Bacillales","f__Bacillaceae","g__Bacillus","s__Bacillus sp. M29(2016b)"]},{"id":"OTU_44","metadata":["k__Bacteria","p__Firmicutes","c__Bacilli","o__Lactobacillales","f__Lactobacillaceae","g__Lactobacillus","s__Lactobacillus 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www/masque/done/file30a47fca2dc3/shaman_silva_tree.nhx

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www/masque/done/file3580714197f5.json

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\ No newline at end of file

www/masque/done/file3580714197f5/shaman_findley_tree.nhx

+(OTU_412:0.000000008,((OTU_207:0.077831082,OTU_301:0.000000008)0.993:0.113668701,OTU_402:0.031606536)0.883:0.049828591,(OTU_135:0.000000008,((((OTU_423:0.093074135,OTU_69:0.000000008)0.857:0.197101567,(OTU_370:0.116397760,(OTU_191:0.075077752,OTU_144:0.030948531)0.038:0.000000036)0.485:0.057497533)0.610:0.015041579,(OTU_92:0.081150552,OTU_209:0.000000008)0.432:0.000000008)0.741:0.020142747,((OTU_10:0.000000008,OTU_418:0.000000008)0.400:0.011364528,(((OTU_261:0.000000008,((((OTU_111:0.000000008,((OTU_333:0.000000008,(OTU_442:0.050805055,OTU_441:0.058863453)0.848:0.035897256)0.992:0.112155272,(((OTU_347:0.000000008,(OTU_13:0.000000008,OTU_312:0.000000008)0.696:0.000000008)0.348:0.000000008,(OTU_274:0.041372767,(OTU_409:0.000000014,OTU_248:0.286820477)0.591:0.063127530)0.000:0.000000008)0.854:0.028624537,(OTU_7:0.000000008,(OTU_391:0.040780646,OTU_309:0.032601524)0.000:0.000000008)0.750:0.011453263)0.893:0.050458539)0.902:0.067941704)0.000:0.000000008,((OTU_34:0.015495917,((OTU_434:0.109647396,OTU_194:0.000000008)0.999:0.523275974,OTU_107:0.623456071)0.730:0.085458338)0.763:0.052170017,((OTU_128:0.000000008,OTU_35:0.042266381)0.727:0.000000008,(OTU_20:0.012960096,OTU_102:0.112523342)0.715:0.013363638)0.900:0.072685686)0.646:0.022099067)0.940:0.047376749,(OTU_267:0.139014502,((((OTU_116:0.617103151,(((OTU_147:0.416665453,(((OTU_16:0.041613373,(OTU_127:0.019975536,OTU_53:0.033613118)1.000:0.303625511)0.950:0.065588314,OTU_60:0.022244573)0.689:0.022944336,OTU_62:0.000000008)0.998:0.597547182)0.268:0.063399682,(OTU_22:0.121437325,OTU_426:0.149466113)0.725:0.220256342)0.836:0.169476609,(OTU_81:0.631440199,((((((OTU_82:0.467343823,(OTU_159:0.197269431,OTU_433:0.503178478)0.352:0.159657597)0.106:0.039500148,(OTU_458:0.000000027,(((OTU_338:0.000000008,((((OTU_178:0.000000008,(OTU_26:0.000000008,(OTU_77:0.019308124,OTU_167:0.008502073)0.727:0.000000008)0.996:0.051576233)0.548:0.011580741,(((OTU_272:0.017517022,OTU_19:0.024133825)0.000:0.000000008,(OTU_106:0.000000008,OTU_145:0.038904277)0.129:0.000000008)0.938:0.040273553,((OTU_74:0.035235884,OTU_152:0.041807110)0.789:0.015302187,OTU_184:0.028577281)0.589:0.003228241)0.845:0.023277655)0.020:0.007697116,OTU_98:0.000000008)0.018:0.000000036,(OTU_405:0.017014794,OTU_142:0.016949708)0.888:0.024267267)0.918:0.038022298)0.763:0.009884050,(OTU_247:0.000000008,OTU_112:0.000000008)0.992:0.066281063)0.000:0.000000008,(OTU_105:0.000000014,(OTU_340:0.091394487,OTU_30:0.000000008)1.000:0.181700187)0.415:0.042170772)0.999:0.540383381)0.990:0.579689987)0.713:0.092300461,(OTU_55:0.160571978,OTU_168:0.129818114)0.996:0.324589418)0.528:0.040941594,(OTU_322:0.075420438,OTU_54:0.000000008)1.000:0.501446988)0.658:0.088208497,(OTU_44:0.592446862,(OTU_231:0.723470668,(((((OTU_124:0.250103293,OTU_33:0.208790528)0.881:0.100347012,(OTU_29:0.099456052,OTU_163:0.074547179)0.997:0.159629528)0.265:0.028538578,OTU_189:0.184499742)0.587:0.038898964,(((((OTU_85:0.110773022,OTU_79:0.169632240)0.472:0.042819219,((OTU_109:0.120166331,OTU_94:0.025805725)0.701:0.039059029,(OTU_351:0.059511184,((OTU_137:0.114853101,(OTU_174:0.097309682,(OTU_63:0.000000008,OTU_374:0.026875215)0.749:0.014703334)0.926:0.050772797)0.318:0.041823439,OTU_48:0.153082847)0.909:0.065926552)0.944:0.071084927)0.431:0.040282907)0.073:0.019828387,((((OTU_70:0.042454338,OTU_113:0.024444641)0.126:0.002346840,(((((OTU_41:0.000000008,OTU_45:0.091176552)0.000:0.000000008,OTU_429:0.018174937)0.813:0.015556854,(OTU_1:0.005696122,(OTU_103:0.020486007,OTU_78:0.019001589)0.558:0.015238299)0.784:0.014350973)0.882:0.028750366,(OTU_138:0.092656970,OTU_14:0.000000008)0.868:0.016371884)0.942:0.046368266,(OTU_64:0.000000019,OTU_164:0.042406208)0.995:0.072148974)0.826:0.019331122)0.804:0.033066495,OTU_132:0.092216709)0.818:0.032767797,OTU_71:0.153444076)0.521:0.010345099)0.998:0.164233508,(((OTU_59:0.270959236,((((OTU_459:0.044077926,OTU_18:0.000000008)0.939:0.028195486,OTU_266:0.000000008)0.914:0.027729038,(OTU_57:0.017025436,OTU_148:0.114367836)0.670:0.024470491)0.863:0.031825547,OTU_205:0.013250424)0.996:0.242885772)0.736:0.065625572,((OTU_392:0.568585098,(OTU_27:0.107204267,OTU_250:0.000000008)0.749:0.226834965)0.552:0.176752928,OTU_80:0.326162576)0.725:0.082824996)0.928:0.120277567,(OTU_123:0.190317115,OTU_171:0.213485761)0.992:0.274081492)0.881:0.065281879)0.771:0.039602385,(OTU_465:0.147669073,((OTU_169:0.035255532,OTU_255:0.002851078)0.997:0.201977300,(OTU_327:0.432028796,OTU_67:0.104475966)0.516:0.207848633)0.647:0.096544181)0.146:0.069922583)0.287:0.025480556)0.777:0.068558030,((OTU_292:0.409651670,OTU_305:0.137761849)0.950:1.030620251,OTU_456:0.000000008)0.664:0.271821846)0.710:0.055964943)0.737:0.139942539)0.814:0.114858584)0.390:0.030521144,(OTU_151:0.009695720,(OTU_389:0.034370144,OTU_89:0.000000008)0.923:0.066360275)1.000:0.457530321)0.467:0.080287637)0.630:0.129126122)0.569:0.047879334)0.857:0.157470403,((OTU_359:0.000000019,(OTU_31:0.014902062,OTU_110:0.004388430)0.537:0.042465871)0.993:0.348954189,(OTU_280:0.505141807,OTU_84:0.356987644)0.780:0.167376050)0.820:0.187519034)0.789:0.098675556,((OTU_427:0.041546603,(OTU_39:0.000000008,OTU_175:0.018880327)0.537:0.000000008)0.998:0.427440694,(OTU_445:0.018762790,(OTU_224:0.116026187,(((OTU_212:0.021784790,OTU_384:0.008834193)0.878:0.016237722,OTU_269:0.002159690)0.534:0.012160340,((OTU_4:0.009968032,OTU_157:0.005095271)0.000:0.000000008,((OTU_146:0.017468538,OTU_438:0.033055117)0.093:0.008776154,OTU_297:0.057939304)0.000:0.000000036)0.742:0.004902002)0.812:0.051073587)0.791:0.075513060)0.700:0.077619811)0.991:0.344921977)0.922:0.163104862,OTU_385:0.047883640)0.654:0.039440537)0.119:0.000000014)0.961:0.000000008,OTU_9:0.000000008)0.942:0.000000008)0.799:0.000000008,OTU_96:0.079214190)0.880:0.090315047,OTU_294:0.143342973)0.706:0.025991863)0.884:0.020067318)0.790:0.010148617)0.956:0.020822500);

www/masque/done/file3580714197f5/shaman_otu_table.tsv

+#OTU ID	IHMS1	IHMS2	IHMS3	IHMS4	IHMS5	IHMS6	MOBIO1	MOBIO2	MOBIO3	MOBIO4	MOBIO5	MOBIO6
+OTU_1	0	112	3	0	4384	2845	0	85	6	1	3044	13479
+OTU_10	0	0	0	0	843	626	0	0	0	0	769	394
+OTU_100	0	0	0	0	0	0	0	4	79	44	0	1
+OTU_101	26	0	0	0	0	0	51	0	0	0	0	0
+OTU_102	0	0	0	0	72	37	0	0	0	0	63	69
+OTU_103	0	3	0	0	5	10	0	1	0	0	13	48
+OTU_104	0	0	0	1	0	0	0	0	5	56	0	0
+OTU_105	0	0	54	0	1	0	0	0	0	0	0	0
+OTU_106	0	0	0	0	64	3	0	0	0	0	0	0
+OTU_107	0	27	0	0	0	0	0	129	0	0	0	0
+OTU_108	0	0	47	0	0	0	0	0	0	0	16	0
+OTU_109	0	44	0	0	0	0	1	50	0	0	0	0
+OTU_11	6	0	516	676	3	37	27	64	309	642	30	34
+OTU_110	31	30	0	0	0	0	0	76	0	0	0	0
+OTU_111	0	0	0	0	41	19	0	0	0	0	17	5
+OTU_112	0	0	0	0	0	1	0	0	42	0	0	0
+OTU_113	0	0	0	0	0	0	0	64	0	0	0	0
+OTU_114	144	3	16	12	15	18	0	0	0	2	0	1
+OTU_115	0	0	0	69	0	0	0	0	7	0	0	0
+OTU_116	0	107	0	0	0	0	0	0	0	0	0	0
+OTU_117	0	0	36	50	0	0	2	0	6	0	0	0
+OTU_118	0	0	64	103	0	0	0	0	6	17	0	0
+OTU_119	58	0	0	0	0	0	56	18	0	0	0	0
+OTU_12	1040	491	0	0	0	0	966	817	0	0	0	0
+OTU_120	0	0	0	0	0	0	0	41	0	0	0	0
+OTU_121	0	0	0	0	27	21	0	0	0	0	4	5
+OTU_122	0	0	30	0	0	0	0	0	0	34	0	0
+OTU_123	0	87	0	0	0	0	0	0	0	0	0	0
+OTU_124	0	0	0	0	0	0	0	58	0	0	0	0
+OTU_125	74	24	0	0	0	0	85	101	0	0	0	0
+OTU_126	84	0	0	0	0	0	12	2	0	0	0	0
+OTU_127	0	0	0	0	0	0	0	70	0	0	0	0
+OTU_128	0	0	0	0	35	34	0	0	0	0	68	27
+OTU_129	58	0	0	0	0	0	4	14	0	0	0	0
+OTU_13	0	0	0	0	386	385	0	0	1	0	1040	286
+OTU_130	12	0	25	0	0	0	0	1	0	0	0	0
+OTU_131	6	0	91	180	5	15	0	15	14	16	0	0
+OTU_132	0	0	56	0	0	0	0	0	0	0	0	0
+OTU_133	0	0	12	2	0	0	0	0	7	16	0	0
+OTU_134	0	0	2	0	0	0	0	0	0	57	0	0
+OTU_135	0	0	0	0	90	38	0	0	0	0	37	56
+OTU_136	0	0	0	0	0	0	61	0	0	0	0	0
+OTU_137	0	0	0	0	0	0	0	45	0	0	0	0
+OTU_138	3	14	0	0	1	2	0	27	0	1	11	13
+OTU_139	1	0	84	19	5	0	0	0	5	0	0	0
+OTU_14	156	811	0	0	60	182	0	1547	14	24	305	208
+OTU_140	0	0	0	0	20	8	0	0	0	0	4	0
+OTU_141	0	0	36	0	0	0	0	0	5	25	0	0
+OTU_142	0	1	0	0	2	0	0	0	0	0	0	29
+OTU_143	4	0	3	3	0	0	7	0	22	4	4	0
+OTU_144	0	0	0	0	4	5	0	0	0	0	54	4
+OTU_145	0	0	53	2	646	9	0	0	0	0	4	0
+OTU_146	131	768	21	0	0	29	275	117	2	24	0	0
+OTU_147	0	0	0	0	0	0	0	80	0	0	0	0
+OTU_148	0	0	0	0	0	0	0	44	0	0	0	0
+OTU_149	0	0	0	0	0	0	59	0	0	0	0	0
+OTU_15	1268	0	0	0	0	0	2	0	0	0	0	0
+OTU_150	0	0	53	0	0	0	0	0	0	14	0	0
+OTU_151	0	0	0	0	0	0	0	0	70	0	0	0
+OTU_152	1	0	2	0	5	3	0	0	1	50	1	1
+OTU_153	0	0	14	12	1	1	0	0	2	14	4	1
+OTU_154	0	0	38	9	0	0	0	0	0	0	0	0
+OTU_155	37	0	0	0	0	0	0	0	0	0	0	0
+OTU_156	0	0	51	264	0	0	0	0	0	14	0	0
+OTU_157	110	502	20	0	0	16	177	71	1	14	0	0
+OTU_158	15	0	0	4	5	3	0	0	9	38	8	0
+OTU_159	0	0	0	0	0	0	0	0	0	49	0	0
+OTU_16	0	0	2051	1	0	0	0	0	0	0	0	0
+OTU_160	0	0	0	0	61	2	0	0	0	0	23	5
+OTU_161	60	1	0	0	0	0	8	1	0	0	0	0
+OTU_162	0	0	124	14	0	0	0	0	7	1	0	0
+OTU_163	0	45	0	0	0	0	0	0	0	0	0	0
+OTU_164	0	40	0	0	5	0	0	2	0	0	0	0
+OTU_165	0	0	0	0	0	34	0	0	0	0	0	0
+OTU_166	0	0	31	0	0	0	0	0	0	0	0	0
+OTU_167	0	0	0	0	2	312	0	1	0	0	3	0
+OTU_168	0	0	0	0	0	0	0	0	61	0	0	0
+OTU_169	0	0	0	0	0	0	0	108	0	0	0	1
+OTU_17	0	0	0	0	341	511	0	0	0	0	920	83
+OTU_170	61	3	45	145	13	14	0	0	19	22	0	0
+OTU_171	0	0	0	0	0	0	0	39	0	0	0	0
+OTU_172	36	0	0	0	0	0	0	0	0	0	0	0
+OTU_173	0	0	22	13	0	0	0	0	6	2	0	0
+OTU_174	3	3	0	0	0	0	0	26	0	0	0	0
+OTU_175	1	72	0	0	0	0	2	5	0	0	0	0
+OTU_176	52	0	5	0	0	0	3	0	0	4	0	0
+OTU_177	0	0	0	0	0	0	0	0	4	23	0	0
+OTU_178	0	0	44	263	53	12	0	0	2	8	4	2
+OTU_179	0	0	0	0	0	0	0	379	0	0	0	0
+OTU_18	0	67	0	0	0	0	355	392	224	292	0	0
+OTU_180	11	0	0	0	0	0	46	2	0	0	0	0
+OTU_181	0	0	19	0	0	0	0	0	1	0	0	0
+OTU_182	9	0	0	0	1	0	0	5	0	0	2	0
+OTU_183	0	0	0	0	0	0	0	0	0	22	0	0
+OTU_184	41	0	0	0	5	0	0	0	0	0	0	0
+OTU_185	1	0	0	0	0	0	20	0	0	0	0	0
+OTU_186	29	0	0	0	0	0	0	0	8	0	0	0
+OTU_187	0	0	0	0	0	0	0	0	29	0	0	0
+OTU_188	0	0	15	0	0	0	0	0	26	2	0	0
+OTU_189	0	0	0	0	0	0	0	0	22	0	0	0
+OTU_19	0	1	15	0	161	0	0	0	0	0	0	0
+OTU_190	0	0	0	0	0	0	0	0	0	40	0	0
+OTU_191	0	0	0	0	0	0	0	0	0	0	37	0
+OTU_192	0	0	26	58	0	0	0	1	94	167	0	0
+OTU_193	0	0	0	0	0	1	10	0	0	0	116	8
+OTU_194	0	0	0	0	35	59	0	0	0	0	0	17
+OTU_195	0	0	10	37	0	0	0	0	6	12	0	0
+OTU_196	0	0	0	0	0	0	0	0	0	28	0	0
+OTU_197	0	0	0	0	21	22	0	0	0	0	3	2
+OTU_198	9	0	0	0	0	0	0	17	0	0	0	0
+OTU_199	13	0	0	0	0	0	0	0	0	0	0	0
+OTU_2	0	1	1323	2312	0	0	0	171	7053	6619	0	0
+OTU_20	0	0	0	0	673	363	0	0	0	0	709	527
+OTU_200	0	0	0	27	0	0	0	0	0	0	0	0
+OTU_201	139	0	4	0	3	0	0	0	1	6	0	0
+OTU_202	1	3	4	5	0	0	0	0	9	6	0	0
+OTU_203	0	0	0	0	0	0	0	0	2	2	18	0
+OTU_204	0	0	0	62	0	0	0	0	0	0	0	0
+OTU_205	0	25	0	0	0	0	0	0	1	1	0	0
+OTU_206	0	0	0	0	0	0	0	0	0	18	0	0
+OTU_207	0	0	0	0	63	1	0	0	0	0	4	6
+OTU_208	0	0	17	0	4	0	0	2	4	16	0	0
+OTU_209	0	0	0	0	84	27	0	0	0	0	36	37
+OTU_21	56	16	220	312	0	2	17	58	20	157	0	0
+OTU_210	0	0	1	1	0	1	0	2	29	49	41	1
+OTU_211	0	0	33	29	0	0	3	1	7	0	0	0
+OTU_212	18	109	1	0	0	3	26	10	0	5	0	0
+OTU_213	0	0	0	0	0	0	17	0	0	0	0	0
+OTU_214	0	0	0	0	0	0	0	17	0	0	0	0
+OTU_215	0	0	0	0	5	4	0	0	0	0	4	5
+OTU_216	0	0	0	57	0	0	0	0	6	23	0	0
+OTU_217	14	5	0	0	0	0	10	0	0	0	0	0
+OTU_218	0	1	0	0	0	0	15	0	0	0	0	0
+OTU_219	1	0	24	24	1	0	0	2	4	0	2	0
+OTU_22	66	0	133	411	0	0	152	0	0	101	229	0
+OTU_220	0	0	0	0	0	0	16	0	0	0	0	0
+OTU_221	0	0	7	6	0	1	0	3	10	5	1	0
+OTU_222	0	0	42	0	0	0	0	0	0	0	0	0
+OTU_223	0	0	11	0	0	0	0	0	0	0	0	0
+OTU_224	2	3	0	0	0	29	5	2	0	1	0	0
+OTU_225	66	42	114	164	0	0	22	50	264	186	0	0
+OTU_226	3	0	1	8	0	0	49	43	28	13	5	1
+OTU_227	0	0	0	0	0	0	0	0	0	0	19	0
+OTU_228	0	0	40	0	0	0	0	0	0	0	0	0
+OTU_229	4	15	0	0	0	0	0	2	0	0	0	0
+OTU_23	7	0	0	0	0	0	0	1717	0	0	0	0
+OTU_230	0	0	0	15	0	0	0	0	0	0	0	0
+OTU_231	0	0	0	0	0	0	0	0	0	53	0	0
+OTU_232	7	0	2	14	2	0	0	0	0	0	0	0
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