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Commit d0a8c968 authored by vpodpecan's avatar vpodpecan
Browse files

fixed read microarray file

parent 97d2210d
......@@ -731,7 +731,7 @@
"treeview_image": "",
"name": "Map miRNA to gene (tarbase)",
"is_streaming": false,
"uid": "62a5daf4-158f-45be-a76f-77b3b3c775de",
"uid": "309b79f4-0761-4ced-b754-5844bbad14d9",
"interaction_view": "",
"image": "",
"package": "segmine",
......@@ -756,7 +756,7 @@
"widget": 141,
"name": "miRNA ranks",
"short_name": "rnk",
"uid": "58eff0c1-ab96-4f03-a3a5-506cec73014f",
"uid": "d66cf1c3-5619-4c89-9ad1-220b7238e06c",
"default": "",
"required": true,
"multi": false,
......@@ -775,7 +775,7 @@
"name": "gene ranks",
"short_name": "rnk",
"variable": "gene_ranks",
"uid": "d9619376-b048-42bd-9da0-01d642a3072d",
"uid": "04b571c8-2e52-4c00-af3b-4b66ad1a4f63",
"order": 1,
"description": "list of pairs (gene, rank)"
}
......@@ -788,7 +788,7 @@
"treeview_image": "",
"name": "Map miRNA to gene (targetscan)",
"is_streaming": false,
"uid": "5238c322-7fa9-454a-81b7-20f72849126e",
"uid": "bcc04bde-485f-4ca3-ace1-28161ff281e4",
"interaction_view": "",
"image": "",
"package": "segmine",
......@@ -813,7 +813,7 @@
"widget": 143,
"name": "miRNA ranks",
"short_name": "rnk",
"uid": "83e626e6-e717-4f31-a38e-3059a255fca2",
"uid": "0e0b0db4-1d36-4ef3-9bd8-51a1c343b2ec",
"default": "",
"required": true,
"multi": false,
......@@ -832,7 +832,7 @@
"name": "gene ranks",
"short_name": "rnk",
"variable": "gene_ranks",
"uid": "389b0578-22fd-4dc2-b1d3-13d62e0ec142",
"uid": "e94960b5-2f39-462d-99eb-30f19b75994a",
"order": 1,
"description": "list of pairs (gene, rank)"
}
......@@ -881,6 +881,152 @@
"description": "List of pairs (geneID, rank)"
}
},
{
"pk": 144,
"model": "workflows.abstractwidget",
"fields": {
"category": 16,
"treeview_image": "",
"name": "Read microarray data from file",
"is_streaming": false,
"uid": "01aad79e-9991-412c-b619-cb87a956b65a",
"interaction_view": "",
"image": "",
"package": "segmine",
"static_image": "",
"post_interact_action": "",
"user": null,
"visualization_view": "",
"streaming_visualization_view": "",
"action": "segmine_read_microarray_data",
"wsdl_method": "",
"wsdl": "",
"interactive": false,
"has_progress_bar": false,
"order": 1,
"description": "Reads a csv of gene expression data in SegMine specific format into an Orange data table."
}
},
{
"pk": 342,
"model": "workflows.abstractinput",
"fields": {
"widget": 144,
"name": "Microarray csv data file",
"short_name": "csv",
"uid": "4a2fc0cc-4140-46a8-924c-72ffad6297e0",
"default": "",
"required": true,
"multi": false,
"parameter_type": "file",
"variable": "file",
"parameter": true,
"order": 1,
"description": ""
}
},
{
"pk": 343,
"model": "workflows.abstractinput",
"fields": {
"widget": 144,
"name": "Fold change: Input data format",
"short_name": "f",
"uid": "94c5f4f1-7d85-45e2-8393-38fc31a70630",
"default": "1",
"required": true,
"multi": false,
"parameter_type": "select",
"variable": "idf",
"parameter": true,
"order": 2,
"description": "Specifies whether the input data is linear or log2 transformed (needed for fold change computation)."
}
},
{
"pk": 94,
"model": "workflows.abstractoption",
"fields": {
"uid": "43a8b68c-6fcc-4908-a45e-53f08e27670b",
"abstract_input": 343,
"value": "1",
"name": "linear"
}
},
{
"pk": 95,
"model": "workflows.abstractoption",
"fields": {
"uid": "dcd58ba0-8956-4802-b954-f2a2c7deae79",
"abstract_input": 343,
"value": "2",
"name": "log2-transformed"
}
},
{
"pk": 344,
"model": "workflows.abstractinput",
"fields": {
"widget": 144,
"name": "Fold change: Calculation method",
"short_name": "m",
"uid": "f3c2883f-e4a6-4c2b-90d8-07a73af84708",
"default": "1",
"required": true,
"multi": false,
"parameter_type": "select",
"variable": "cm",
"parameter": true,
"order": 3,
"description": "Specifies fold change calculation method."
}
},
{
"pk": 97,
"model": "workflows.abstractoption",
"fields": {
"uid": "2ff3aa8b-b70b-48c7-9306-4e39727894bd",
"abstract_input": 344,
"value": "2",
"name": "difference of average log2 values"
}
},
{
"pk": 96,
"model": "workflows.abstractoption",
"fields": {
"uid": "c36b408a-4947-424b-af2b-534bb57a0804",
"abstract_input": 344,
"value": "1",
"name": "ratio"
}
},
{
"pk": 165,
"model": "workflows.abstractoutput",
"fields": {
"widget": 144,
"name": "Orange data table with class",
"short_name": "odt",
"variable": "table",
"uid": "e376fd1f-31d0-4d20-98e3-032bccbdb00a",
"order": 1,
"description": "Orange data table where columns are genes and rows are measurements. The class attribute indicates whether the measurement belongs to the control or the treatment group."
}
},
{
"pk": 166,
"model": "workflows.abstractoutput",
"fields": {
"widget": 144,
"name": "Fold change",
"short_name": "fc",
"variable": "fold_change",
"uid": "9d0b23d8-4493-4f61-842a-78356402fd54",
"order": 2,
"description": "sorted list of pairs (gene, fold change)"
}
},
{
"pk": 93,
"model": "workflows.abstractwidget",
......
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