Repository 'proteore_prot_features'
hg clone https://eddie.galaxyproject.org/repos/proteore/proteore_prot_features

Changeset 9:2eb72be62446 (2019-05-10)
Previous changeset 8:aca66c3b8fbb (2019-05-10) Next changeset 10:a1b21b263a04 (2019-05-10)
Commit message:
planemo upload commit 3e8aad84b7fe9218370364b1aef3ea5779475f9f-dirty
modified:
add_protein_features.xml
added:
tool-data/nextprot_ref_08-10-2018.tsv
b
diff -r aca66c3b8fbb -r 2eb72be62446 add_protein_features.xml
--- a/add_protein_features.xml Fri May 10 03:59:23 2019 -0400
+++ b/add_protein_features.xml Fri May 10 05:33:03 2019 -0400
[
@@ -1,4 +1,4 @@
-<tool id="prot_features" name="Add protein features" version="2019.05.10">
+<tool id="prot_features" name="Add protein features" version="2019.05.10.1">
 <description>[neXtProt]
 </description>
 <requirements>
@@ -64,8 +64,8 @@
   </conditional>
 
       <param name="idtype" type="select" label="Type of IDs" multiple="false" optional="false"> 
-        <option value="Uniprot_AC" selected="true">Uniprot accession number</option>
-          <option value="NextprotID" selected="false">neXtProt IDs</option>
+            <option value="NextprotID" selected="true">neXtProt IDs</option>
+          <option value="Uniprot_AC" selected="false">Uniprot accession number</option>
       </param>
       <section name="Nextprot_params" title="Select features" expanded="True">
         <param name="pc_features" type="select" label="Physico-Chemical Features" multiple="true" help="" display="checkboxes" optional="false"> 
b
diff -r aca66c3b8fbb -r 2eb72be62446 tool-data/nextprot_ref_08-10-2018.tsv
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tool-data/nextprot_ref_08-10-2018.tsv Fri May 10 05:33:03 2019 -0400
b
b'@@ -0,0 +1,20231 @@\n+NextprotID\tMW\tSeqLength\tIsoPoint\tChr\tSubcellLocations\tDiseases\tTMDomains\tProteinExistence\n+NX_Q7RTS7\t57865\t529\t7.59\t12\tNA\tEctodermal dysplasia 7, hair/nail type;Woolly hair autosomal dominant;Hypotrichosis 3\t0\tPE1\n+NX_Q7RTS9\t75935\t669\t5.56\t18\tGolgi apparatus;Cytoplasm;Golgi apparatus;Membrane\tSmith-McCort dysplasia 1;Dyggve-Melchior-Clausen syndrome\t0\tPE1\n+NX_Q7RTT3\t21553\t188\t9.19\tX\tNA\tNA\t0\tPE2\n+NX_Q7RTT4\t21859\t187\t9.46\tX\tNA\tNA\t0\tPE2\n+NX_Q7RTT5\t21591\t188\t9.19\tX\tNA\tNA\t0\tPE2\n+NX_Q7RTT6\t21688\t188\t9.32\tX\tNA\tNA\t0\tPE5\n+NX_Q7RTT9\t58059\t530\t7.64\t7\tCytoskeleton;Cytoskeleton;Apical cell membrane;Cell membrane\tNA\t10\tPE1\n+NX_Q7RTU0\t17516\t167\t10.24\t8\tNucleus\tNA\t0\tPE3\n+NX_Q7RTU1\t23309\t214\t11.33\t2\tNucleus\tNA\t0\tPE2\n+NX_Q7RTU3\t29358\t272\t9.54\t6\tNucleus\tNA\t0\tPE1\n+NX_Q7RTU4\t24132\t235\t11.21\t17\tNucleus;Cytoplasm\tCamptosynpolydactyly, complex;Syndactyly, mesoaxial synostotic, with phalangeal reduction;Split-hand/foot malformation with long bone deficiency 3\t0\tPE1\n+NX_Q7RTU5\t29462\t278\t8.71\t1\tNucleus\tNA\t0\tPE3\n+NX_Q7RTU7\t21596\t201\t10.17\t8\tNucleus\tNA\t0\tPE3\n+NX_Q7RTU9\t192967\t1775\t5.27\t15\tKinocilium;Stereocilium;Cell surface\tDeafness, autosomal recessive, 16;Deafness-infertility syndrome\t0\tPE2\n+NX_Q7RTV0\t12405\t110\t8.79\t22\tNucleoplasm;Nucleus;Nucleus speckle\tNA\t0\tPE1\n+NX_Q7RTV2\t25722\t222\t7.74\t6\tCytoplasm\tNA\t0\tPE1\n+NX_Q7RTV3\t38411\t350\t8.07\t9\tNucleus;Nucleoplasm\tNA\t0\tPE1\n+NX_Q7RTV5\t24857\t226\t9.07\t9\tNA\tNA\t0\tPE1\n+NX_Q7RTW8\t128533\t1153\t5.53\t16\tExtracellular matrix;Apical cell membrane\tDeafness, autosomal recessive, 22\t0\tPE1\n+NX_Q7RTX0\t93386\t852\t6.75\t1\tCell membrane\tNA\t7\tPE1\n+NX_Q7RTX1\t93074\t841\t8.32\t1\tCell membrane\tNA\t7\tPE2\n+NX_Q7RTX7\t54092\t472\t5.15\t1\tFlagellum membrane\tNA\t6\tPE1\n+NX_Q7RTX9\t56254\t510\t6.45\t2\tCytosol;Cell membrane\tNA\t12\tPE2\n+NX_Q7RTY0\t44992\t426\t6.44\t17\tGolgi apparatus;Golgi apparatus membrane;Cell membrane\tDiabetes mellitus, non-insulin-dependent\t12\tPE1\n+NX_Q7RTY1\t55794\t509\t8.25\t10\tCell membrane;Cell junction;Nucleus\tNA\t12\tPE1\n+NX_Q7RTY3\t29329\t260\t8.42\t3\tNA\tNA\t0\tPE2\n+NX_Q7RTY5\t35970\t328\t7.49\t4\tSecreted\tNA\t0\tPE2\n+NX_Q7RTY7\t125066\t1134\t8.67\t12\tSecreted\tNA\t0\tPE1\n+NX_Q7RTY8\t94415\t843\t8.84\t3\tCell membrane\tNA\t1\tPE2\n+NX_Q7RTY9\t35078\t318\t9.36\t16\tCell membrane\tNA\t0\tPE1\n+NX_Q7RTZ1\t62642\t564\t7.22\t11\tSecreted\tNA\t0\tPE1\n+NX_Q7RTZ2\t59590\t530\t7.81\t8\tEndoplasmic reticulum;Nucleus\tNA\t0\tPE3\n+NX_Q7Z2D5\t82983\t763\t9\t1\tMembrane\tNA\t6\tPE1\n+NX_Q7Z2E3\t40740\t356\t9.27\t9\tCytoplasm;Nucleolus;Nucleus;Nucleoplasm;Nucleolus\tAtaxia-oculomotor apraxia syndrome\t0\tPE1\n+NX_Q7Z2F6\t14454\t126\t4.9\t16\tNucleoplasm;Cytosol\tNA\t0\tPE2\n+NX_Q7Z2G1\t19618\t175\t10.69\tX\tNucleus membrane;Chromosome\tNA\t0\tPE1\n+NX_Q7Z2H8\t53076\t476\t6.54\t5\tEndoplasmic reticulum;Cell membrane;Lysosome membrane\tNA\t11\tPE1\n+NX_Q7Z2K6\t100231\t904\t7.2\t9\tNucleus;Nucleolus;Endoplasmic reticulum membrane\tNA\t9\tPE1\n+NX_Q7Z2K8\t102399\t1008\t8.33\t5\tCell membrane;Cytoplasmic vesicle;Cell membrane;Growth cone\tNA\t0\tPE1\n+NX_Q7Z2Q7\t70301\t622\t9.02\t5\tMembrane\tNA\t1\tPE2\n+NX_Q7Z2R9\t10995\t100\t12.15\t1\tSecreted\tNA\t0\tPE5\n+NX_Q7Z2T5\t81747\t733\t8.11\t1\tNucleolus;Nucleus\tNA\t0\tPE1\n+NX_Q7Z2V1\t23111\t217\t6.41\t16\tNA\tNA\t0\tPE1\n+NX_Q7Z2W4\t101431\t902\t8.72\t7\tCytosol;Nucleus;Golgi apparatus;Cytoplasm\tNA\t0\tPE1\n+NX_Q7Z2W7\t127685\t1104\t6.91\t2\tCell membrane;Membrane raft;Endoplasmic reticulum membrane\tNA\t6\tPE1\n+NX_Q7Z2W9\t22815\t205\t9.91\t11\tNucleoplasm;Mitochondrion;Mitochondrion\tNA\t0\tPE1\n+NX_Q7Z2X4\t28272\t250\t6.53\t2\tEndoplasmic reticulum;Cytoplasm\tNA\t0\tPE1\n+NX_Q7Z2X7\t12090\t111\t4\tX\tNA\tNA\t0\tPE1\n+NX_Q7Z2Y5\t178479\t1582\t5.93\tX\tCytoplasm;Cytosol;Nucleoplasm\tNA\t0\tPE1\n+NX_Q7Z2Y8\t279048\t2422\t6.12\t11\tCytosol;Nucleus\tNA\t0\tPE2\n+NX_Q7Z2Z1\t210857\t1910\t9\t15\tNucleus;Nucleoplasm\tNA\t0\tPE1\n+NX_Q7Z2Z2\t125430\t1120\t5.66\t15\tCytosol\tNA\t0\tPE1\n+NX_Q7Z304\t77556\t686\t5.05\t9\tEndoplasmic reticulum;Extracellular matrix\tNA\t0\tPE1\n+NX_Q7Z309\t26928\t247\t5.98\tX\tNucleus;Nucleoplasm\tNA\t0\tPE1\n+NX_Q7Z333\t302880\t2677\t6.83\t9\tCytoskeleton;Nucleus;Nucleolus;Nucleus;Nucleoplasm;Cytoplasm;Chromosome;Telomere;Axon;Growth cone\tSpinocerebellar ataxia, autosomal recessive, 1;Amyotrophic lateral sclerosis 4'..b'3\t36596\t318\t8.13\t16\tCytoskeleton;Membrane;Cytosol;Nucleoplasm;Perinuclear region;Endoplasmic reticulum\tNA\t2\tPE1\n+NX_Q7L5N1\t36163\t327\t5.47\t7\tNucleus;Nucleoplasm;Nucleus;Cytoplasm\tNA\t0\tPE1\n+NX_Q7L5N7\t60208\t544\t6.14\t16\tLipid droplet;Golgi apparatus membrane;Endoplasmic reticulum membrane;Lipid droplet;Endoplasmic reticulum\tNA\t1\tPE1\n+NX_Q7L5Y1\t49786\t443\t6.03\t18\tMitochondrion\tNA\t0\tPE1\n+NX_Q7L5Y6\t63848\t550\t7.32\t15\tNucleoplasm;Cytoskeleton;Nucleus\tNA\t0\tPE1\n+NX_Q7L5Y9\t45287\t396\t8.95\t4\tNucleoplasm;Nucleus matrix;Cell membrane;Cytoskeleton\tNA\t0\tPE1\n+NX_Q7L622\t80504\t706\t7.9\t14\tCytoplasm;Nucleolus\tNA\t0\tPE1\n+NX_Q7L775\t70370\t607\t5.77\t3\tEndoplasmic reticulum\tNA\t0\tPE1\n+NX_Q7L7L0\t14121\t130\t11.05\t1\tNucleus;Chromosome\tNA\t0\tPE1\n+NX_Q7L7V1\t84419\t743\t4.88\t10\tNucleus;Mitochondrion\tNA\t0\tPE1\n+NX_Q7L7X3\t116070\t1001\t7.3\t17\tCytoplasm\tNA\t0\tPE1\n+NX_Q7L804\t58279\t512\t9.33\t10\tCytoplasmic vesicle;Nucleoplasm;Cell membrane;Recycling endosome membrane\tNA\t0\tPE1\n+NX_Q7L8A9\t40957\t365\t9.5\t14\tSecreted\tNA\t0\tPE1\n+NX_Q7L8C5\t46885\t426\t7.6\t11\tGolgi apparatus;Cytoplasmic vesicle;Membrane\tNA\t1\tPE1\n+NX_Q7L8J4\t43499\t393\t5.57\t1\tGolgi apparatus;Cytoplasmic vesicle;Nucleoplasm\tNA\t0\tPE1\n+NX_Q7L8L6\t86574\t764\t8.41\t20\tMitochondrion nucleoid\tNA\t0\tPE1\n+NX_Q7L8S5\t33300\t288\t6.29\tX\tNA\tNA\t0\tPE1\n+NX_Q7L8W6\t30307\t267\t5.24\t15\tNucleus;Nucleolus\tNA\t0\tPE1\n+NX_Q7L945\t52853\t461\t9.18\t19\tNucleolus;Nucleus;Nucleus\tNA\t0\tPE1\n+NX_Q7L985\t68066\t606\t8.44\t9\tMembrane\tNA\t1\tPE1\n+NX_Q7L9B9\t62403\t569\t8.64\t7\tNucleus speckle;Cytoplasmic vesicle;Cell membrane\tNA\t0\tPE1\n+NX_Q7L9L4\t25091\t216\t6.24\t4\tCytoplasm;Nucleus\tNA\t0\tPE1\n+NX_Q7LBC6\t191581\t1761\t6.78\t5\tNucleus;Nucleoplasm\tNA\t0\tPE1\n+NX_Q7LBE3\t86988\t791\t8.47\t1\tMembrane;Nucleus;Cell junction\tNA\t13\tPE1\n+NX_Q7LBR1\t22109\t199\t7.81\t18\tNucleus;Late endosome membrane;Midbody;Cytosol;Endosome\tNA\t0\tPE1\n+NX_Q7LC44\t45316\t396\t5.45\t8\tCytoskeleton;Synapse;Cytoplasmic vesicle;Cytoskeleton;Endosome;Acrosome;Postsynaptic density;Dendrite;Dendritic spine\tNA\t0\tPE1\n+NX_Q7LDG7\t69248\t609\t7.89\t11\tSynaptosome;Ruffle membrane;Cell membrane;Cytosol\tBleeding disorder, platelet-type 18\t0\tPE1\n+NX_Q7LDI9\t74079\t666\t9.11\t7\tCell membrane\tNA\t0\tPE1\n+NX_Q7LFL8\t32977\t322\t9.27\t5\tCytosol;Nucleoplasm;Nucleus;Cytoplasm\tNA\t0\tPE1\n+NX_Q7LFX5\t64926\t561\t8.56\t10\tCentrosome;Cytosol;Golgi apparatus membrane\tNA\t1\tPE1\n+NX_Q7LG56\t40737\t351\t4.89\t8\tNucleus;Nucleoplasm;Cytoplasm;Cytosol\tProgressive external ophthalmoplegia with mitochondrial DNA deletions, autosomal dominant, 5;Mitochondrial DNA depletion syndrome 8A;Mitochondrial DNA depletion syndrome 8B\t0\tPE1\n+NX_Q7LGA3\t41881\t356\t8.83\t1\tMitochondrion;Golgi apparatus membrane\tNA\t1\tPE1\n+NX_Q7LGC8\t54706\t479\t8.84\t10\tCytosol;Golgi apparatus;Golgi apparatus membrane\tSpondyloepiphyseal dysplasia with congenital joint dislocations\t1\tPE1\n+NX_Q7M4L6\t46768\t423\t6.01\t15\tNucleus\tNA\t0\tPE1\n+NX_Q7RTM1\t67353\t612\t8.71\t4\tExtracellular space;Membrane\tNA\t10\tPE2\n+NX_Q7RTN6\t48369\t431\t6.02\t17\tCytosol;Nucleoplasm;Cytoplasm;Nucleus\tNA\t0\tPE1\n+NX_Q7RTP0\t34562\t329\t8.7\t15\tCell membrane;Early endosome\tSpastic paraplegia 6, autosomal dominant\t9\tPE1\n+NX_Q7RTP6\t224295\t2002\t5.43\t22\tCytosol;Cytoplasm;Cell membrane;Nucleoplasm;Cell cortex;Cilium basal body;Spindle;Midbody;Nucleus;Cytoskeleton\tNA\t0\tPE1\n+NX_Q7RTR0\t113312\t991\t6.08\t19\tCytoplasm;Inflammasome\tNA\t0\tPE1\n+NX_Q7RTR2\t114658\t1065\t8.64\t16\tCytosol;Microtubule organizing center;Cytoplasm\tNA\t0\tPE1\n+NX_Q7RTR8\t36195\t314\t9.64\t12\tMembrane;Focal adhesion;Nucleoplasm;Cytoskeleton\tNA\t7\tPE2\n+NX_Q7RTS1\t20818\t189\t11.26\t7\tNucleoplasm;Nucleus;Golgi apparatus\tNA\t0\tPE1\n+NX_Q7RTS3\t34970\t328\t5.1\t10\tNucleus;Nucleoplasm;Cytoplasm\tPancreatic agenesis 2;Pancreatic and cerebellar agenesis\t0\tPE1\n+NX_Q7RTS5\t66296\t596\t8.96\t17\tMembrane\tNA\t12\tPE1\n+NX_Q7RTS6\t62236\t562\t7.04\t17\tMembrane\tNA\t10\tPE1\n+NX_Q8WZ42\t3816030\t34350\t6.02\t2\tCytoplasm;Nucleus   Early-onset myopathy with fatal cardiomyopathy;Cardiomyopathy, familial hypertrophic 9;Cardiomyopathy, dilated 1G;Tardive tibial muscular dystrophy;Hereditary myopathy with early respiratory failure;Limb-girdle muscular dystrophy\t2J\t0\tPE1\n'