Mercurial > repos > shellac > sam_consensus_v3
annotate env/lib/python3.9/site-packages/cwltool/extensions.yml @ 0:4f3585e2f14b draft default tip
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
author | shellac |
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date | Mon, 22 Mar 2021 18:12:50 +0000 |
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1 $base: http://commonwl.org/cwltool# |
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2 $namespaces: |
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3 cwl: "https://w3id.org/cwl/cwl#" |
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4 $graph: |
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5 - $import: https://w3id.org/cwl/CommonWorkflowLanguage.yml |
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6 |
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7 - name: LoadListingRequirement |
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8 type: record |
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9 extends: cwl:ProcessRequirement |
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10 inVocab: false |
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11 fields: |
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12 class: |
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13 type: string |
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14 doc: "Always 'LoadListingRequirement'" |
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15 jsonldPredicate: |
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16 "_id": "@type" |
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17 "_type": "@vocab" |
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18 loadListing: |
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19 type: |
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20 - type: enum |
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21 name: LoadListingEnum |
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22 symbols: [no_listing, shallow_listing, deep_listing] |
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23 |
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24 - name: InplaceUpdateRequirement |
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25 type: record |
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26 inVocab: false |
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27 extends: cwl:ProcessRequirement |
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28 fields: |
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29 class: |
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30 type: string |
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31 doc: "Always 'InplaceUpdateRequirement'" |
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32 jsonldPredicate: |
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33 "_id": "@type" |
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34 "_type": "@vocab" |
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35 inplaceUpdate: |
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36 type: boolean |
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37 |
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38 - name: Secrets |
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39 type: record |
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40 inVocab: false |
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41 extends: cwl:ProcessRequirement |
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42 fields: |
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43 class: |
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44 type: string |
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45 doc: "Always 'Secrets'" |
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46 jsonldPredicate: |
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47 "_id": "@type" |
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48 "_type": "@vocab" |
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49 secrets: |
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50 type: string[] |
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51 doc: | |
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52 List one or more input parameters that are sensitive (such as passwords) |
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53 which will be deliberately obscured from logging. |
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54 jsonldPredicate: |
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55 "_type": "@id" |
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56 refScope: 0 |
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57 |
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58 |
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59 - name: TimeLimit |
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60 type: record |
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61 inVocab: false |
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62 extends: cwl:ProcessRequirement |
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63 doc: | |
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64 Set an upper limit on the execution time of a CommandLineTool or |
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65 ExpressionTool. A tool execution which exceeds the time limit may |
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66 be preemptively terminated and considered failed. May also be |
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67 used by batch systems to make scheduling decisions. |
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68 fields: |
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69 - name: class |
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70 type: string |
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71 doc: "Always 'TimeLimit'" |
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72 jsonldPredicate: |
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73 "_id": "@type" |
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74 "_type": "@vocab" |
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75 - name: timelimit |
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76 type: [long, string] |
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77 doc: | |
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78 The time limit, in seconds. A time limit of zero means no |
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79 time limit. Negative time limits are an error. |
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80 |
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81 |
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82 - name: WorkReuse |
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83 type: record |
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84 inVocab: false |
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85 extends: cwl:ProcessRequirement |
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86 doc: | |
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87 For implementations that support reusing output from past work (on |
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88 the assumption that same code and same input produce same |
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89 results), control whether to enable or disable the reuse behavior |
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90 for a particular tool or step (to accomodate situations where that |
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91 assumption is incorrect). A reused step is not executed but |
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92 instead returns the same output as the original execution. |
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93 |
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94 If `enableReuse` is not specified, correct tools should assume it |
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95 is enabled by default. |
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96 fields: |
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97 - name: class |
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98 type: string |
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99 doc: "Always 'WorkReuse'" |
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100 jsonldPredicate: |
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101 "_id": "@type" |
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102 "_type": "@vocab" |
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103 - name: enableReuse |
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104 type: [boolean, string] |
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105 #default: true |
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106 |
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107 |
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108 - name: NetworkAccess |
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109 type: record |
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110 inVocab: false |
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111 extends: cwl:ProcessRequirement |
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112 doc: | |
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113 Indicate whether a process requires outgoing IPv4/IPv6 network |
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114 access. Choice of IPv4 or IPv6 is implementation and site |
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115 specific, correct tools must support both. |
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116 |
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117 If `networkAccess` is false or not specified, tools must not |
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118 assume network access, except for localhost (the loopback device). |
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119 |
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120 If `networkAccess` is true, the tool must be able to make outgoing |
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121 connections to network resources. Resources may be on a private |
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122 subnet or the public Internet. However, implementations and sites |
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123 may apply their own security policies to restrict what is |
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124 accessible by the tool. |
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125 |
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126 Enabling network access does not imply a publically routable IP |
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127 address or the ability to accept inbound connections. |
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128 |
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129 fields: |
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130 - name: class |
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131 type: string |
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132 doc: "Always 'NetworkAccess'" |
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133 jsonldPredicate: |
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134 "_id": "@type" |
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135 "_type": "@vocab" |
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136 - name: networkAccess |
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137 type: [boolean, string] |
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138 |
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139 - name: ProcessGenerator |
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140 type: record |
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141 inVocab: true |
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142 extends: cwl:Process |
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143 documentRoot: true |
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144 fields: |
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145 - name: class |
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146 jsonldPredicate: |
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147 "_id": "@type" |
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148 "_type": "@vocab" |
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149 type: string |
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150 - name: run |
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151 type: [string, cwl:Process] |
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152 jsonldPredicate: |
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153 _id: "cwl:run" |
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154 _type: "@id" |
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155 doc: | |
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156 Specifies the process to run. |
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157 |
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158 - name: MPIRequirement |
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159 type: record |
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160 inVocab: false |
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161 extends: cwl:ProcessRequirement |
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162 doc: | |
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163 Indicates that a process requires an MPI runtime. |
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164 fields: |
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165 - name: class |
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166 type: string |
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167 doc: "Always 'MPIRequirement'" |
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168 jsonldPredicate: |
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169 "_id": "@type" |
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170 "_type": "@vocab" |
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171 - name: processes |
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172 type: [int, string] |
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173 doc: | |
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174 The number of MPI processes to start. If you give a string, |
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175 this will be evaluated as a CWL Expression and it must |
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176 evaluate to an integer. |