X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?p=CreaPhase.git;a=blobdiff_plain;f=boutiquesDesc%2F3wires_creaPhase.json;fp=boutiquesDesc%2F3wires_creaPhase.json;h=37c62397d7983b7c6c2f4cf446ff5c4dd5466059;hp=0000000000000000000000000000000000000000;hb=05be8ac4091470e0513b4eaec95fe80969b0ce1c;hpb=609b4a986514335157487b8b366823f3f15d100e

diff --git a/boutiquesDesc/3wires_creaPhase.json b/boutiquesDesc/3wires_creaPhase.json
new file mode 100644
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+++ b/boutiquesDesc/3wires_creaPhase.json
@@ -0,0 +1,153 @@
+{
+    "name": "CreaPhase3Wires", 
+	"container-image": {
+		"type": "docker",
+		"image": "camarasu/creaphase:0.3"
+	},
+    "tool-version": "v0.3",   
+ 	"schema-version": "0.5", 
+    "author": "Loriane Weber, Simon Rit, Jean Michel Létang, Françoise Peyrin, Max Langer", 
+    "command-line": "MYDIR=$PWD; cd /CreaPhase; mkdir [DIROUT]; octave --silent --eval \"SimuPBI_3WiresPhant_func('[VERS]', [OVERSAMP], '[BASENAME]', [[DIST]], [ENERGY], [PIXELSIZE], [NBPROJ], [RANGEANGLE], [MODELCTF], [MODELFRESNEL], [HEIGHT], '[DIROUT]', '[NOISETYPE]', [NOISEAMOUNT])\";  tar czf $MYDIR/[RESULTS] [DIROUT]", 
+    "description": "x-ray phase-contrast simulator", 
+    "error-codes": [
+        {
+            "code": 1, 
+            "description": "Crashed"
+        }
+    ], 
+    "inputs": [
+        {
+            "id": "vers", 
+            "name": "Set it to 'Radon' OR 'Analytical'to calculate projections accordingly", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+			"command-line-flag-separator": "",
+            "value-key": "[VERS]"
+        },
+		{
+            "id": "oversamp", 
+            "name": "Oversampling of the projections : use 2 or 4", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+			"command-line-flag-separator": "",
+            "value-key": "[OVERSAMP]"
+        }, 
+        {
+            "id": "basename", 
+            "name": "Basename of the result files", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+			"command-line-flag-separator": "",
+            "value-key": "[BASENAME]"
+        }, 
+        {
+            "id": "dist", 
+            "name": "Distances of propagation (in m), e.g. 0 0.01 0.1 0.20 0.50", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+			"command-line-flag-separator": "",
+            "value-key": "[DIST]"
+        }, 
+        {
+            "id": "energy", 
+            "name": "Energy of the incoming X-ray beam (in keV)", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+			"command-line-flag-separator": "",
+            "value-key": "[ENERGY]"
+        }, 
+        {
+            "id": "pixelSize", 
+            "name": "Pixel size of the detector (in um)", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+            "value-key": "[PIXELSIZE]"
+        },
+		        {
+            "id": "nbProj", 
+            "name": "Number of projections (e.g., 360)", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+			"command-line-flag-separator": "",
+            "value-key": "[NBPROJ]"
+        },
+        {
+            "id": "rangeAngle", 
+            "name": "Range of the tomography : 180 or 360 degrees", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+            "value-key": "[RANGEANGLE]"
+        },
+		{
+            "id": "modelCtf", 
+            "name": "Use 1 if you want to use the CTF model, 0 otherwise", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+			"command-line-flag-separator": "",
+            "value-key": "[MODELCTF]"
+        }, 
+        {
+            "id": "modelFresnel", 
+            "name": "Use 1 if you want to use the Fresnel model, 0 otherwise", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+			"command-line-flag-separator": "",
+            "value-key": "[MODELFRESNEL]"
+        }, 
+        {
+            "id": "height", 
+            "name": "height of the object. If height == 1, the simulation is computed in 1D. If height >=2 , the simulation turns into 2D.", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+			"command-line-flag-separator": "",
+            "value-key": "[HEIGHT]"
+        }, 
+        {
+            "id": "dirOut", 
+            "name": "Output directory name", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+			"command-line-flag-separator": "",
+            "value-key": "[DIROUT]"
+        }, 
+        {
+            "id": "noiseType", 
+            "name": "Use noise='gaussian' (addition of gaussian noise) or noise='poisson' (generation of Poisson noise).", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+			"command-line-flag-separator": "",
+            "value-key": "[NOISETYPE]"
+        }, 
+        {
+            "id": "noiseAmount", 
+            "name": "If 'gaussian' (additive noise), please specify the Peak-to-peak Signe-to-noise ratio (PPSNR, in dB). If 'poisson', please specify a scaling factor ranging in [0:1].", 
+            "optional": false, 
+            "type": "String", 
+			"command-line-flag": "",
+            "value-key": "[NOISEAMOUNT]"
+        }
+    ], 
+	"output-files":[
+		{
+			"id" : "resultTarball",
+			"name" : "resultTarball",
+			"description" : "archive of the output folder containing execution results, and the output of the command",
+			"path-template" : "results.tar.gz",
+			"optional": false, 
+			"value-key" : "[RESULTS]"
+		}
+	]
+}
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