1 | !---------------------------------------------------------------------- |
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2 | ! NEMO system team, System and Interface for oceanic RElocable Nesting |
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3 | !---------------------------------------------------------------------- |
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4 | ! |
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5 | ! MODULE: iom_cdf |
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6 | ! |
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7 | ! DESCRIPTION: |
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8 | !> @brief NETCDF Input/Output manager : Library to read Netcdf input files |
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9 | !> |
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10 | !> @details |
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11 | !> to open netcdf file:<br/> |
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12 | !> @code |
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13 | !> CALL iom_cdf_open(td_file) |
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14 | !> @endcode |
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15 | !> - td_file is file structure (see @ref file) |
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16 | !> |
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17 | !> to write in netcdf file:<br/> |
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18 | !> @code |
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19 | !> CALL iom_cdf_write_file(td_file) |
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20 | !> @endcode |
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21 | !> |
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22 | !> to close netcdf file:<br/> |
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23 | !> @code |
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24 | !> CALL iom_cdf_close(tl_file) |
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25 | !> @endcode |
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26 | !> |
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27 | !> to read one dimension in netcdf file:<br/> |
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28 | !> @code |
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29 | !> tl_dim = iom_cdf_read_dim(tl_file, id_dimid) |
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30 | !> @endcode |
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31 | !> or |
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32 | !> @code |
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33 | !> tl_dim = iom_cdf_read_dim(tl_file, cd_name) |
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34 | !> @endcode |
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35 | !> - id_dimid is dimension id<br/> |
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36 | !> - cd_name is dimension name |
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37 | !> |
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38 | !> to read one attribute in netcdf file:<br/> |
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39 | !> @code |
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40 | !> tl_att = iom_cdf_read_att(tl_file, id_varid, id_attid) |
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41 | !> @endcode |
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42 | !> or |
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43 | !> @code |
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44 | !> tl_att = iom_cdf_read_att(tl_file, id_varid, cd_name) |
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45 | !> @endcode |
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46 | !> - id_varid is variable id |
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47 | !> - id_attid is attribute id<br/> |
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48 | !> - cd_name is attribute name |
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49 | !> |
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50 | !> to read one variable in netcdf file:<br/> |
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51 | !> @code |
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52 | !> tl_var = iom_cdf_read_var(td_file, id_varid, [id_start, id_count]) |
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53 | !> @endcode |
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54 | !> or |
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55 | !> @code |
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56 | !> tl_var = iom_cdf_read_var(td_file, cd_name, [id_start, [id_count,]]) |
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57 | !> @endcode |
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58 | !> - id_varid is variabale id |
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59 | !> - cd_name is variabale name |
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60 | !> - id_start is a integer(4) 1D array of index from which the data |
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61 | !> values will be read [optional] |
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62 | !> - id_count is a integer(4) 1D array of the number of indices selected |
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63 | !> along each dimension [optional] |
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64 | !> |
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65 | !> @author |
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66 | !> J.Paul |
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67 | ! REVISION HISTORY: |
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68 | !> @date November, 2013 - Initial Version |
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69 | ! |
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70 | !> @note Software governed by the CeCILL licence (NEMOGCM/NEMO_CeCILL.txt) |
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71 | !---------------------------------------------------------------------- |
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72 | MODULE iom_cdf |
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73 | USE netcdf ! nf90 library |
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74 | USE global ! global parameter |
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75 | USE kind ! F90 kind parameter |
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76 | USE fct ! basic useful function |
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77 | USE logger ! log file manager |
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78 | USE att ! attribute manage |
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79 | USE dim ! dimension manager |
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80 | USE var ! variable manager |
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81 | USE file ! file manager |
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82 | IMPLICIT NONE |
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83 | ! NOTE_avoid_public_variables_if_possible |
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84 | |
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85 | ! function and subroutine |
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86 | PUBLIC :: iom_cdf_open !< open or create netcdf file, return file structure |
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87 | PUBLIC :: iom_cdf_close !< close netcdf file |
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88 | PUBLIC :: iom_cdf_read_dim !< read one dimension in an opened netcdf file, return dimension structure |
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89 | PUBLIC :: iom_cdf_read_att !< read one attribute in an opened netcdf file, return attribute structure |
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90 | PUBLIC :: iom_cdf_read_var !< read one variable in an opened netcdf file, return variable structure |
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91 | PUBLIC :: iom_cdf_fill_var !< fill variable value in an opened netcdf file |
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92 | PUBLIC :: iom_cdf_write_file !< write file structure contents in an opened netcdf file |
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93 | |
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94 | PRIVATE :: iom_cdf__check ! provides a simple interface to netcdf error message |
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95 | PRIVATE :: iom_cdf__get_info ! get global information in an opened netcdf file |
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96 | PRIVATE :: iom_cdf__get_file_dim ! read dimension on an opened netcdf file, and reorder it |
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97 | PRIVATE :: iom_cdf__get_file_att ! read global attribute on an opened netcdf file |
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98 | PRIVATE :: iom_cdf__get_file_var ! read information about variable on an opened netcdf file |
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99 | PRIVATE :: iom_cdf__read_dim_id ! read one dimension in an opened netcdf file, given dimension id. |
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100 | PRIVATE :: iom_cdf__read_dim_name ! read one dimension in an opened netcdf file, given dimension name. |
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101 | PRIVATE :: iom_cdf__read_att_name ! read variable or global attribute in an opened netcdf file, given attribute name. |
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102 | PRIVATE :: iom_cdf__read_att_id ! read variable or global attribute in an opened netcdf file, given attribute id. |
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103 | PRIVATE :: iom_cdf__read_var_id ! read variable value in an opened netcdf file, given variable id. |
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104 | PRIVATE :: iom_cdf__read_var_name ! read variable value in an opened netcdf file, given variable name or standard name. |
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105 | PRIVATE :: iom_cdf__read_var_meta ! read metadata of a variable in an opened netcdf file. |
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106 | PRIVATE :: iom_cdf__read_var_dim ! read variable dimension in an opened netcdf file. |
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107 | PRIVATE :: iom_cdf__read_var_att ! read variable attributes in an opened netcdf file. |
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108 | PRIVATE :: iom_cdf__read_var_value ! read variable value in an opened netcdf file. |
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109 | PRIVATE :: iom_cdf__write_dim ! write one dimension in an opened netcdf file in write mode. |
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110 | PRIVATE :: iom_cdf__write_att ! write a variable attribute in an opened netcdf file. |
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111 | PRIVATE :: iom_cdf__write_var ! write a variable in an opened netcdf file. |
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112 | PRIVATE :: iom_cdf__write_var_def ! define variable in an opened netcdf file. |
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113 | PRIVATE :: iom_cdf__write_var_value ! put variable value in an opened netcdf file. |
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114 | PRIVATE :: iom_cdf__fill_var_id ! fill variable value in an opened netcdf file, given variable id |
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115 | PRIVATE :: iom_cdf__fill_var_name ! fill variable value in an opened netcdf file, given variable name |
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116 | PRIVATE :: iom_cdf__fill_var_all ! fill all variable value in an opened netcdf file |
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117 | PRIVATE :: iom_cdf__del_coord_var ! remove coordinate variable from an opened netcdf file |
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118 | |
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119 | INTERFACE iom_cdf_read_var |
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120 | MODULE PROCEDURE iom_cdf__read_var_id |
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121 | MODULE PROCEDURE iom_cdf__read_var_name |
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122 | END INTERFACE iom_cdf_read_var |
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123 | |
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124 | INTERFACE iom_cdf_fill_var |
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125 | MODULE PROCEDURE iom_cdf__fill_var_id |
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126 | MODULE PROCEDURE iom_cdf__fill_var_name |
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127 | MODULE PROCEDURE iom_cdf__fill_var_all |
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128 | END INTERFACE iom_cdf_fill_var |
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129 | |
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130 | INTERFACE iom_cdf_read_dim |
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131 | MODULE PROCEDURE iom_cdf__read_dim_id |
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132 | MODULE PROCEDURE iom_cdf__read_dim_name |
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133 | END INTERFACE iom_cdf_read_dim |
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134 | |
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135 | INTERFACE iom_cdf_read_att |
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136 | MODULE PROCEDURE iom_cdf__read_att_id |
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137 | MODULE PROCEDURE iom_cdf__read_att_name |
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138 | END INTERFACE iom_cdf_read_att |
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139 | |
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140 | CONTAINS |
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141 | !------------------------------------------------------------------- |
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142 | !> @brief This subroutine provides a simple interface to |
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143 | !> netcdf error message |
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144 | !> |
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145 | !> @author J.Paul |
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146 | !> @date November, 2013 - Initial Version |
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147 | !> @date May, 2015 - add optional message to netcdf error message |
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148 | !> |
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149 | !> @param[in] id_status error status |
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150 | !> @param[in] cd_msg message |
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151 | !------------------------------------------------------------------- |
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152 | SUBROUTINE iom_cdf__check(id_status, cd_msg) |
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153 | IMPLICIT NONE |
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154 | ! Argument |
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155 | INTEGER(i4) , INTENT(IN) :: id_status |
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156 | CHARACTER(LEN=*), INTENT(IN), OPTIONAL :: cd_msg |
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157 | ! local variable |
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158 | CHARACTER(LEN=lc) :: cl_msg |
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159 | !---------------------------------------------------------------- |
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160 | |
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161 | cl_msg="" |
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162 | IF( PRESENT(cd_msg) ) cl_msg=cd_msg |
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163 | |
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164 | IF( id_status /= NF90_NOERR )THEN |
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165 | CALL logger_error(TRIM(cl_msg)//TRIM(NF90_STRERROR(id_status))) |
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166 | ENDIF |
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167 | |
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168 | END SUBROUTINE iom_cdf__check |
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169 | !------------------------------------------------------------------- |
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170 | !> @brief This subroutine open a netcdf file in read or write mode. |
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171 | !> @details |
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172 | !> if try to open a file in write mode that did not exist, create it.<br/> |
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173 | !> if file already exist, get information about0:<br/> |
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174 | !> - the number of variables |
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175 | !> - the number of dimensions |
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176 | !> - the number of global attributes |
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177 | !> - the ID of the unlimited dimension |
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178 | !> - the file format |
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179 | !> Finally it read dimensions, and 'longitude' variable to compute East-West |
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180 | !> overlap. |
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181 | !> |
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182 | !> @author J.Paul |
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183 | !> @date November, 2013 - Initial Version |
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184 | ! |
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185 | !> @param[inout] td_file file structure |
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186 | !------------------------------------------------------------------- |
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187 | SUBROUTINE iom_cdf_open(td_file) |
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188 | IMPLICIT NONE |
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189 | ! Argument |
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190 | TYPE(TFILE), INTENT(INOUT) :: td_file |
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191 | |
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192 | ! local variable |
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193 | LOGICAL :: ll_exist |
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194 | LOGICAL :: ll_open |
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195 | |
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196 | INTEGER(i4) :: il_status |
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197 | !---------------------------------------------------------------- |
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198 | |
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199 | ! check file existence |
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200 | INQUIRE(FILE=TRIM(td_file%c_name), EXIST=ll_exist, OPENED=ll_open) |
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201 | ! ll_open do not work for netcdf file, always return FALSE |
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202 | IF( .NOT. ll_exist .OR. TRIM(td_file%c_type) /= 'cdf' )THEN |
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203 | |
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204 | IF( .NOT. td_file%l_wrt )THEN |
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205 | |
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206 | CALL logger_fatal( " IOM CDF OPEN: can not open file "//& |
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207 | & TRIM(td_file%c_name) ) |
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208 | |
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209 | ELSE |
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210 | |
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211 | CALL logger_info( " IOM CDF CREATE: file "//TRIM(td_file%c_name) ) |
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212 | |
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213 | il_status = NF90_CREATE(TRIM(td_file%c_name),& |
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214 | & cmode=NF90_64BIT_OFFSET,& |
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215 | & ncid=td_file%i_id) |
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216 | CALL iom_cdf__check(il_status," IOM CDF CREATE: ") |
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217 | |
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218 | td_file%l_def=.TRUE. |
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219 | |
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220 | ENDIF |
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221 | |
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222 | ELSE |
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223 | |
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224 | IF( td_file%i_id /= 0 )THEN |
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225 | |
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226 | CALL logger_error( " IOM CDF OPEN: file "//& |
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227 | & TRIM(td_file%c_name)//" already opened") |
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228 | |
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229 | ELSE |
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230 | |
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231 | IF( .NOT. td_file%l_wrt )THEN |
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232 | |
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233 | CALL logger_info( " IOM CDF OPEN: file "//& |
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234 | & TRIM(td_file%c_name)//" in read only mode" ) |
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235 | |
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236 | il_status = NF90_OPEN( TRIM(td_file%c_name), & |
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237 | & NF90_NOWRITE, & |
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238 | & td_file%i_id) |
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239 | CALL iom_cdf__check(il_status," IOM CDF OPEN: ") |
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240 | |
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241 | ELSE |
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242 | |
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243 | CALL logger_info( "IOM CDF OPEN: file "//& |
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244 | & TRIM(td_file%c_name)//" in write mode" ) |
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245 | |
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246 | il_status = NF90_OPEN( TRIM(td_file%c_name), & |
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247 | & NF90_WRITE, & |
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248 | & td_file%i_id) |
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249 | CALL iom_cdf__check(il_status,"IOM CDF OPEN: ") |
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250 | |
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251 | ENDIF |
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252 | |
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253 | ! get general information about file |
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254 | CALL iom_cdf__get_info(td_file) |
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255 | |
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256 | ! read dimension in file |
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257 | CALL iom_cdf__get_file_dim(td_file) |
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258 | |
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259 | ! read global attribute in file |
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260 | CALL iom_cdf__get_file_att(td_file) |
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261 | |
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262 | ! get information about variables in file |
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263 | CALL iom_cdf__get_file_var(td_file) |
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264 | |
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265 | ! remove dimension variable from list of variable |
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266 | CALL iom_cdf__del_coord_var(td_file) |
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267 | |
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268 | ENDIF |
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269 | |
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270 | ENDIF |
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271 | |
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272 | END SUBROUTINE iom_cdf_open |
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273 | !------------------------------------------------------------------- |
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274 | !> @brief This subroutine close netcdf file. |
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275 | !> |
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276 | !> @author J.Paul |
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277 | !> @date November, 2013 - Initial Version |
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278 | ! |
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279 | !> @param[inout] td_file file structure |
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280 | !------------------------------------------------------------------- |
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281 | SUBROUTINE iom_cdf_close(td_file) |
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282 | IMPLICIT NONE |
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283 | ! Argument |
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284 | TYPE(TFILE), INTENT(INOUT) :: td_file |
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285 | |
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286 | ! local variable |
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287 | INTEGER(i4) :: il_status |
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288 | !---------------------------------------------------------------- |
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289 | |
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290 | ! check if file opened |
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291 | IF( td_file%i_id == 0 )THEN |
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292 | |
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293 | CALL logger_error( & |
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294 | & " IOM CDF CLOSE: no id associated to file "//TRIM(td_file%c_name)) |
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295 | |
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296 | ELSE |
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297 | CALL logger_info( & |
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298 | & " IOM CDF CLOSE: file "//TRIM(td_file%c_name)) |
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299 | |
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300 | il_status = NF90_CLOSE(td_file%i_id) |
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301 | CALL iom_cdf__check(il_status,"IOM CDF CLOSE: ") |
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302 | |
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303 | td_file%i_id = 0 |
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304 | |
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305 | ENDIF |
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306 | |
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307 | END SUBROUTINE iom_cdf_close |
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308 | !------------------------------------------------------------------- |
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309 | !> @brief This subroutine get global information in an opened netcdf |
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310 | !> file. |
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311 | !> @details |
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312 | !> It gets the number of variables, the number of dimensions, |
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313 | !> the number of global attributes, the ID of the unlimited dimension |
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314 | !> and finally the format version and filled file strucuture with it. |
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315 | !> |
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316 | !> @author J.Paul |
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317 | !> @date November, 2013 - Initial Version |
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318 | ! |
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319 | !> @param[inout] td_file file structure |
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320 | !------------------------------------------------------------------- |
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321 | SUBROUTINE iom_cdf__get_info(td_file) |
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322 | IMPLICIT NONE |
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323 | ! Argument |
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324 | TYPE(TFILE), INTENT(INOUT) :: td_file |
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325 | |
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326 | ! local variable |
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327 | INTEGER(i4) :: il_fmt ! format version |
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328 | INTEGER(i4) :: il_status |
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329 | !---------------------------------------------------------------- |
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330 | |
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331 | CALL logger_trace( & |
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332 | & " IOM CDF GET INFO: about netcdf file "//TRIM(td_file%c_name)) |
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333 | |
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334 | il_status=NF90_INQUIRE(td_file%i_id, td_file%i_ndim, & |
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335 | & td_file%i_nvar, td_file%i_natt, td_file%i_uldid, il_fmt) |
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336 | CALL iom_cdf__check(il_status,"IOM CDF GET INFO: ") |
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337 | |
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338 | SELECT CASE(il_fmt) |
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339 | CASE(nf90_format_classic, nf90_format_64bit) |
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340 | td_file%c_type='cdf' |
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341 | CASE(nf90_format_netcdf4, nf90_format_netcdf4_classic) |
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342 | td_file%c_type='cdf4' |
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343 | END SELECT |
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344 | |
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345 | ! record header infos |
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346 | td_file%i_rhd=1 |
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347 | |
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348 | END SUBROUTINE iom_cdf__get_info |
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349 | !------------------------------------------------------------------- |
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350 | !> @brief This subroutine read dimension on an opened netcdf file, and |
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351 | !> reorder dimension to ('x', 'y', 'z', 't'). |
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352 | !> The dimension structure inside file structure is then completed. |
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353 | ! |
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354 | !> @author J.Paul |
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355 | !> @date November, 2013 - Initial Version |
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356 | ! |
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357 | !> @param[inout] td_file file structure |
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358 | !------------------------------------------------------------------- |
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359 | SUBROUTINE iom_cdf__get_file_dim(td_file) |
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360 | IMPLICIT NONE |
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361 | ! Argument |
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362 | TYPE(TFILE), INTENT(INOUT) :: td_file |
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363 | ! local variable |
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364 | TYPE(TDIM) :: tl_dim |
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365 | |
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366 | ! loop indices |
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367 | INTEGER(i4) :: ji |
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368 | INTEGER(i4) :: ii |
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369 | !---------------------------------------------------------------- |
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370 | |
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371 | ! clean dimension |
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372 | DO ji=1,ip_maxdim |
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373 | CALL dim_clean(td_file%t_dim(ji)) |
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374 | ENDDO |
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375 | |
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376 | IF( td_file%i_ndim > 0 )THEN |
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377 | ii=1 |
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378 | DO ji = 1, td_file%i_ndim |
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379 | ! read dimension information |
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380 | tl_dim=iom_cdf_read_dim( td_file, ji) |
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381 | IF( .NOT. dim_is_dummy(tl_dim) )THEN |
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382 | IF( ii > ip_maxdim )THEN |
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383 | CALL logger_fatal("IOM CDF OPEN: too much dimension "//& |
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384 | & "to be read. you should remove dummy dimension using "//& |
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385 | & " configuration file") |
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386 | ENDIF |
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387 | td_file%t_dim(ii)=dim_copy(tl_dim) |
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388 | ii=ii+1 |
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389 | ENDIF |
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390 | ENDDO |
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391 | |
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392 | ! inform unlimited dimension |
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393 | IF( td_file%i_uldid == -1 )THEN |
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394 | CALL logger_warn( & |
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395 | & " IOM CDF GET FILE DIM: there is no unlimited dimension in file "//& |
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396 | & TRIM(td_file%c_name)) |
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397 | ELSE |
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398 | td_file%t_dim( td_file%i_uldid )%l_uld=.TRUE. |
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399 | ENDIF |
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400 | |
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401 | ELSE |
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402 | |
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403 | CALL logger_warn( & |
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404 | & " IOM CDF GET FILE DIM: there is no dimension in file "//& |
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405 | & TRIM(td_file%c_name)) |
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406 | |
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407 | ENDIF |
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408 | |
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409 | ! reorder dimension to ('x','y','z','t') |
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410 | CALL dim_reorder(td_file%t_dim(:)) |
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411 | |
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412 | END SUBROUTINE iom_cdf__get_file_dim |
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413 | !------------------------------------------------------------------- |
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414 | !> @brief This subroutine read global attribute on an opened netcdf |
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415 | !> file. |
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416 | !> The attribute structure inside file structure is then completed. |
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417 | ! |
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418 | !> @author J.Paul |
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419 | !> @date November, 2013 - Initial Version |
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420 | !> @date September, 2014 |
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421 | !> - use attribute periodicity read from the file if present. |
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422 | ! |
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423 | !> @param[inout] td_file file structure |
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424 | !------------------------------------------------------------------- |
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425 | SUBROUTINE iom_cdf__get_file_att(td_file) |
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426 | IMPLICIT NONE |
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427 | ! Argument |
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428 | TYPE(TFILE), INTENT(INOUT) :: td_file |
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429 | |
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430 | ! local variable |
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431 | TYPE(TATT) :: tl_att |
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432 | |
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433 | ! loop indices |
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434 | INTEGER(i4) :: ji |
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435 | INTEGER(i4) :: ii |
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436 | !---------------------------------------------------------------- |
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437 | |
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438 | IF( td_file%i_natt > 0 )THEN |
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439 | IF(ASSOCIATED(td_file%t_att))THEN |
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440 | CALL att_clean(td_file%t_att(:)) |
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441 | DEALLOCATE(td_file%t_att) |
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442 | ENDIF |
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443 | ALLOCATE(td_file%t_att(td_file%i_natt)) |
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444 | |
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445 | ii=1 |
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446 | DO ji = 1, td_file%i_natt |
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447 | ! read global attribute |
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448 | tl_att=iom_cdf_read_att( td_file, NF90_GLOBAL, ji) |
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449 | IF( .NOT. att_is_dummy(tl_att) )THEN |
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450 | td_file%t_att(ii)=att_copy(tl_att) |
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451 | ii=ii+1 |
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452 | ENDIF |
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453 | |
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454 | ENDDO |
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455 | |
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456 | ELSE |
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457 | CALL logger_debug( & |
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458 | & " IOM CDF GET FILE ATT: there is no global attribute in file "//& |
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459 | & TRIM(td_file%c_name)) |
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460 | ENDIF |
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461 | |
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462 | END SUBROUTINE iom_cdf__get_file_att |
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463 | !------------------------------------------------------------------- |
---|
464 | !> @brief This subroutine read information about variable of an |
---|
465 | !> opened netcdf file. |
---|
466 | !> The variable structure inside file structure is then completed. |
---|
467 | !> @note variable value are not read ! |
---|
468 | ! |
---|
469 | !> @author J.Paul |
---|
470 | !> @date November, 2013 - Initial Version |
---|
471 | !> @date September, 2015 |
---|
472 | !> - manage useless (dummy) variable |
---|
473 | !> @date January, 2016 |
---|
474 | !> - increment n3d for 4D variable |
---|
475 | ! |
---|
476 | !> @param[inout] td_file file structure |
---|
477 | !------------------------------------------------------------------- |
---|
478 | SUBROUTINE iom_cdf__get_file_var(td_file) |
---|
479 | IMPLICIT NONE |
---|
480 | ! Argument |
---|
481 | TYPE(TFILE), INTENT(INOUT) :: td_file |
---|
482 | |
---|
483 | ! local variable |
---|
484 | INTEGER(i4) :: il_attid |
---|
485 | INTEGER(i4) :: il_nvar |
---|
486 | |
---|
487 | TYPE(TVAR), DIMENSION(:), ALLOCATABLE :: tl_var |
---|
488 | |
---|
489 | ! loop indices |
---|
490 | INTEGER(i4) :: ji |
---|
491 | INTEGER(i4) :: ii |
---|
492 | !---------------------------------------------------------------- |
---|
493 | |
---|
494 | IF( td_file%i_nvar > 0 )THEN |
---|
495 | |
---|
496 | IF(ASSOCIATED(td_file%t_var))THEN |
---|
497 | CALL var_clean(td_file%t_var(:)) |
---|
498 | DEALLOCATE(td_file%t_var) |
---|
499 | ENDIF |
---|
500 | |
---|
501 | il_nvar=td_file%i_nvar |
---|
502 | ALLOCATE(tl_var(il_nvar)) |
---|
503 | ii=0 |
---|
504 | DO ji = 1, il_nvar |
---|
505 | ! read variable information |
---|
506 | tl_var(ji)=iom_cdf__read_var_meta( td_file, ji) |
---|
507 | IF( .NOT. var_is_dummy(tl_var(ji)) )THEN |
---|
508 | ii=ii+1 |
---|
509 | ENDIF |
---|
510 | ENDDO |
---|
511 | |
---|
512 | ! update number of variable used |
---|
513 | td_file%i_nvar=ii |
---|
514 | |
---|
515 | ALLOCATE(td_file%t_var(td_file%i_nvar)) |
---|
516 | |
---|
517 | ii=0 |
---|
518 | DO ji = 1, il_nvar |
---|
519 | IF( .NOT. var_is_dummy(tl_var(ji)) )THEN |
---|
520 | ii=ii+1 |
---|
521 | td_file%t_var(ii)=var_copy(tl_var(ji)) |
---|
522 | SELECT CASE(td_file%t_var(ii)%i_ndim) |
---|
523 | CASE(0) |
---|
524 | td_file%i_n0d=td_file%i_n0d+1 |
---|
525 | CASE(1) |
---|
526 | td_file%i_n1d=td_file%i_n1d+1 |
---|
527 | td_file%i_rhd=td_file%i_rhd+1 |
---|
528 | CASE(2) |
---|
529 | td_file%i_n2d=td_file%i_n2d+1 |
---|
530 | td_file%i_rhd=td_file%i_rhd+1 |
---|
531 | CASE(3,4) |
---|
532 | td_file%i_n3d=td_file%i_n3d+1 |
---|
533 | td_file%i_rhd=td_file%i_rhd+td_file%t_dim(3)%i_len |
---|
534 | END SELECT |
---|
535 | |
---|
536 | ! look for depth id |
---|
537 | IF( INDEX(TRIM(fct_lower(td_file%t_var(ii)%c_name)),'depth')/=0 )THEN |
---|
538 | IF( td_file%i_depthid == 0 )THEN |
---|
539 | td_file%i_depthid=ji |
---|
540 | ELSE |
---|
541 | IF( td_file%i_depthid /= ji )THEN |
---|
542 | CALL logger_error("IOM CDF GET FILE VAR: find more"//& |
---|
543 | & " than one depth variable in file "//& |
---|
544 | & TRIM(td_file%c_name) ) |
---|
545 | ENDIF |
---|
546 | ENDIF |
---|
547 | ENDIF |
---|
548 | |
---|
549 | ! look for time id |
---|
550 | IF( INDEX(TRIM(fct_lower(td_file%t_var(ii)%c_name)),'time')/=0 )THEN |
---|
551 | IF( td_file%i_timeid == 0 )THEN |
---|
552 | td_file%i_timeid=ji |
---|
553 | ELSE |
---|
554 | il_attid=0 |
---|
555 | IF( ASSOCIATED(td_file%t_var(ii)%t_att) )THEN |
---|
556 | il_attid=att_get_id(td_file%t_var(ii)%t_att(:),'calendar') |
---|
557 | ENDIF |
---|
558 | IF( il_attid /= 0 )THEN |
---|
559 | td_file%i_timeid=ji |
---|
560 | !ELSE |
---|
561 | ! CALL logger_error("IOM CDF GET FILE VAR: find more "//& |
---|
562 | ! & "than one time variable in file "//& |
---|
563 | ! & TRIM(td_file%c_name) ) |
---|
564 | ENDIF |
---|
565 | ENDIF |
---|
566 | ENDIF |
---|
567 | |
---|
568 | ENDIF |
---|
569 | ENDDO |
---|
570 | |
---|
571 | CALL var_clean(tl_var(:)) |
---|
572 | DEALLOCATE(tl_var) |
---|
573 | |
---|
574 | ELSE |
---|
575 | CALL logger_debug( & |
---|
576 | & " IOM CDF GET FILE VAR: there is no variable in file "//& |
---|
577 | & TRIM(td_file%c_name)) |
---|
578 | ENDIF |
---|
579 | |
---|
580 | END SUBROUTINE iom_cdf__get_file_var |
---|
581 | !------------------------------------------------------------------- |
---|
582 | !> @brief This subroutine delete coordinate variable from an |
---|
583 | !> opened netcdf file if present. |
---|
584 | ! |
---|
585 | !> @author J.Paul |
---|
586 | !> @date November, 2013 - Initial Version |
---|
587 | ! |
---|
588 | !> @param[inout] td_file file structure |
---|
589 | !------------------------------------------------------------------- |
---|
590 | SUBROUTINE iom_cdf__del_coord_var(td_file) |
---|
591 | IMPLICIT NONE |
---|
592 | ! Argument |
---|
593 | TYPE(TFILE), INTENT(INOUT) :: td_file |
---|
594 | |
---|
595 | ! local variable |
---|
596 | CHARACTER(LEN=lc) :: cl_name |
---|
597 | CHARACTER(LEN=lc) :: cl_sname |
---|
598 | |
---|
599 | ! loop indices |
---|
600 | INTEGER(i4) :: ji |
---|
601 | INTEGER(i4) :: jj |
---|
602 | !---------------------------------------------------------------- |
---|
603 | IF( td_file%i_nvar > 0 )THEN |
---|
604 | DO ji=td_file%i_nvar,1,-1 |
---|
605 | cl_name=TRIM(td_file%t_var(ji)%c_name) |
---|
606 | DO jj=1,ip_maxdim |
---|
607 | IF( td_file%t_dim(jj)%l_use )THEN |
---|
608 | cl_sname=fct_upper(td_file%t_dim(jj)%c_sname) |
---|
609 | IF( TRIM(cl_name) == TRIM(cl_sname) )THEN |
---|
610 | CALL file_del_var(td_file,TRIM(cl_name)) |
---|
611 | EXIT |
---|
612 | ENDIF |
---|
613 | ENDIF |
---|
614 | ENDDO |
---|
615 | ENDDO |
---|
616 | ELSE |
---|
617 | CALL logger_debug( & |
---|
618 | & " IOM CDF DEL VAR DIM: there is no variable in file "//& |
---|
619 | & TRIM(td_file%c_name)) |
---|
620 | ENDIF |
---|
621 | END SUBROUTINE iom_cdf__del_coord_var |
---|
622 | !------------------------------------------------------------------- |
---|
623 | !> @brief This function read one dimension in an opened netcdf file, |
---|
624 | !> given dimension id. |
---|
625 | ! |
---|
626 | !> @author J.Paul |
---|
627 | !> @date November, 2013 - Initial Version |
---|
628 | !> @date February, 2015 - create unused dimension, when reading dimension |
---|
629 | !> of length less or equal to zero |
---|
630 | ! |
---|
631 | !> @param[in] td_file file structure |
---|
632 | !> @param[in] id_dimid dimension id |
---|
633 | !> @return dimension structure |
---|
634 | !------------------------------------------------------------------- |
---|
635 | TYPE(TDIM) FUNCTION iom_cdf__read_dim_id(td_file, id_dimid) |
---|
636 | IMPLICIT NONE |
---|
637 | ! Argument |
---|
638 | TYPE(TFILE), INTENT(IN) :: td_file |
---|
639 | INTEGER(i4), INTENT(IN) :: id_dimid |
---|
640 | |
---|
641 | ! local variable |
---|
642 | INTEGER(i4) :: il_status |
---|
643 | INTEGER(i4) :: il_len |
---|
644 | CHARACTER(LEN=lc) :: cl_name |
---|
645 | LOGICAL :: ll_use |
---|
646 | !---------------------------------------------------------------- |
---|
647 | |
---|
648 | ! check if file opened |
---|
649 | IF( td_file%i_id == 0 )THEN |
---|
650 | |
---|
651 | CALL logger_error( & |
---|
652 | & " IOM CDF READ DIM: no id associated to file "//TRIM(td_file%c_name)) |
---|
653 | |
---|
654 | ELSE |
---|
655 | |
---|
656 | CALL logger_trace( & |
---|
657 | & " IOM CDF READ DIM: dimension "//TRIM(fct_str(id_dimid))//& |
---|
658 | & " in file "//TRIM(td_file%c_name)) |
---|
659 | |
---|
660 | il_status=NF90_INQUIRE_DIMENSION(td_file%i_id, id_dimid, & |
---|
661 | & cl_name, il_len ) |
---|
662 | CALL iom_cdf__check(il_status,"IOM CDF READ DIM: ") |
---|
663 | |
---|
664 | ll_use=.TRUE. |
---|
665 | IF( il_len <= 0 )THEN |
---|
666 | CALL logger_warn( & |
---|
667 | & " IOM CDF READ DIM: dimension "//TRIM(fct_str(id_dimid))//& |
---|
668 | & " in file "//TRIM(td_file%c_name)//" is less or equel to zero") |
---|
669 | il_len=1 |
---|
670 | ll_use=.FALSE. |
---|
671 | ENDIF |
---|
672 | iom_cdf__read_dim_id=dim_init(cl_name, il_len, ld_use=ll_use) |
---|
673 | |
---|
674 | ENDIF |
---|
675 | |
---|
676 | iom_cdf__read_dim_id%i_id=id_dimid |
---|
677 | |
---|
678 | END FUNCTION iom_cdf__read_dim_id |
---|
679 | !------------------------------------------------------------------- |
---|
680 | !> @brief This function read one dimension in an opened netcdf file, |
---|
681 | !> given dimension name. |
---|
682 | ! |
---|
683 | !> @author J.Paul |
---|
684 | !> @date November, 2013 - Initial Version |
---|
685 | ! |
---|
686 | !> @param[in] td_file file structure |
---|
687 | !> @param[in] cd_name dimension name |
---|
688 | !> @return dimension structure |
---|
689 | !------------------------------------------------------------------- |
---|
690 | TYPE(TDIM) FUNCTION iom_cdf__read_dim_name(td_file, cd_name) |
---|
691 | IMPLICIT NONE |
---|
692 | ! Argument |
---|
693 | TYPE(TFILE), INTENT(IN) :: td_file |
---|
694 | CHARACTER(LEN=*), INTENT(IN) :: cd_name |
---|
695 | |
---|
696 | ! local variable |
---|
697 | INTEGER(i4) :: il_status |
---|
698 | INTEGER(i4) :: il_dimid |
---|
699 | !---------------------------------------------------------------- |
---|
700 | |
---|
701 | ! check if file opened |
---|
702 | IF( td_file%i_id == 0 )THEN |
---|
703 | |
---|
704 | CALL logger_error( & |
---|
705 | & " IOM CDF READ DIM: no id associated to file "//& |
---|
706 | & TRIM(td_file%c_name)) |
---|
707 | |
---|
708 | ELSE |
---|
709 | |
---|
710 | il_status=NF90_INQ_DIMID( td_file%i_id, TRIM(ADJUSTL(cd_name)), & |
---|
711 | & il_dimid) |
---|
712 | CALL iom_cdf__check(il_status,"IOM CDF READ DIM: ") |
---|
713 | |
---|
714 | iom_cdf__read_dim_name=iom_cdf_read_dim(td_file, il_dimid) |
---|
715 | |
---|
716 | ENDIF |
---|
717 | |
---|
718 | END FUNCTION iom_cdf__read_dim_name |
---|
719 | !------------------------------------------------------------------- |
---|
720 | !> @brief This function read variable or global attribute in an opened |
---|
721 | !> netcdf file, given attribute name. |
---|
722 | ! |
---|
723 | !> @author J.Paul |
---|
724 | !> @date November, 2013 - Initial Version |
---|
725 | ! |
---|
726 | !> @param[in] td_file file structure |
---|
727 | !> @param[in] id_varid variable id. use NF90_GLOBAL to read global |
---|
728 | !> attribute in a file |
---|
729 | !> @param[in] cd_name attribute name |
---|
730 | !> @return attribute structure |
---|
731 | !------------------------------------------------------------------- |
---|
732 | TYPE(TATT) FUNCTION iom_cdf__read_att_name(td_file, id_varid, cd_name) |
---|
733 | IMPLICIT NONE |
---|
734 | ! Argument |
---|
735 | TYPE(TFILE), INTENT(IN) :: td_file |
---|
736 | INTEGER(i4), INTENT(IN) :: id_varid |
---|
737 | CHARACTER(LEN=*), INTENT(IN) :: cd_name |
---|
738 | |
---|
739 | ! local variable |
---|
740 | CHARACTER(LEN=lc) :: cl_name |
---|
741 | |
---|
742 | INTEGER(i4) :: il_status |
---|
743 | INTEGER(i4) :: il_attid |
---|
744 | INTEGER(i4) :: il_type |
---|
745 | INTEGER(i4) :: il_len |
---|
746 | |
---|
747 | CHARACTER(LEN=lc) :: cl_value |
---|
748 | |
---|
749 | INTEGER(i1), DIMENSION(:), ALLOCATABLE :: bl_value |
---|
750 | INTEGER(i2), DIMENSION(:), ALLOCATABLE :: sl_value |
---|
751 | INTEGER(i4), DIMENSION(:), ALLOCATABLE :: il_value |
---|
752 | REAL(sp) , DIMENSION(:), ALLOCATABLE :: fl_value |
---|
753 | REAL(dp) , DIMENSION(:), ALLOCATABLE :: dl_value |
---|
754 | !---------------------------------------------------------------- |
---|
755 | ! check if file opened |
---|
756 | IF( td_file%i_id == 0 )THEN |
---|
757 | |
---|
758 | CALL logger_error( & |
---|
759 | & " IOM CDF READ ATT: no id associated to file "//TRIM(td_file%c_name)) |
---|
760 | |
---|
761 | ELSE |
---|
762 | |
---|
763 | cl_name=TRIM(ADJUSTL(cd_name)) |
---|
764 | |
---|
765 | ! inquire attribute |
---|
766 | IF( id_varid == NF90_GLOBAL )THEN |
---|
767 | |
---|
768 | CALL logger_trace( & |
---|
769 | & " IOM CDF READ ATT: inquire global attribute "//& |
---|
770 | & " in file "//TRIM(td_file%c_name)) |
---|
771 | |
---|
772 | ELSE |
---|
773 | |
---|
774 | CALL logger_trace( & |
---|
775 | & " IOM CDF READ ATT: inquire attribute "//& |
---|
776 | & " of variable "//TRIM(fct_str(id_varid))//& |
---|
777 | & " in file "//TRIM(td_file%c_name)) |
---|
778 | |
---|
779 | ENDIF |
---|
780 | |
---|
781 | il_status=NF90_INQUIRE_ATTRIBUTE(td_file%i_id, id_varid, & |
---|
782 | & cl_name,& |
---|
783 | & il_type,& |
---|
784 | & il_len, & |
---|
785 | & il_attid ) |
---|
786 | CALL iom_cdf__check(il_status,"IOM CDF READ ATT: ") |
---|
787 | |
---|
788 | !! get attribute value |
---|
789 | CALL logger_debug( " IOM CDF READ ATT: get attribute "//& |
---|
790 | & TRIM(cl_name)//" in file "//TRIM(td_file%c_name)) |
---|
791 | |
---|
792 | SELECT CASE( il_type ) |
---|
793 | |
---|
794 | CASE(NF90_CHAR) |
---|
795 | |
---|
796 | ! check string lengths |
---|
797 | IF( LEN(cl_value) < il_len )THEN |
---|
798 | |
---|
799 | CALL logger_warn( & |
---|
800 | & " IOM CDF READ ATT: not enough space to put "//& |
---|
801 | & "attribute "//TRIM(cl_name) ) |
---|
802 | |
---|
803 | ELSE |
---|
804 | |
---|
805 | ! Read the attributes |
---|
806 | il_status=NF90_GET_ATT(td_file%i_id, id_varid, & |
---|
807 | & cl_name, & |
---|
808 | & cl_value ) |
---|
809 | CALL iom_cdf__check(il_status,"IOM CDF READ ATT: ") |
---|
810 | |
---|
811 | iom_cdf__read_att_name=att_init(cl_name, cl_value) |
---|
812 | |
---|
813 | ENDIF |
---|
814 | |
---|
815 | CASE(NF90_BYTE) |
---|
816 | |
---|
817 | ALLOCATE( bl_value( il_len), & |
---|
818 | & stat=il_status) |
---|
819 | IF(il_status /= 0 )THEN |
---|
820 | |
---|
821 | CALL logger_error( "IOM CDF READ ATT: "//& |
---|
822 | & "not enough space to put attribute "//TRIM(cl_name) ) |
---|
823 | |
---|
824 | ELSE |
---|
825 | |
---|
826 | ! Read the attributes |
---|
827 | il_status=NF90_GET_ATT(td_file%i_id, id_varid, & |
---|
828 | & cl_name, & |
---|
829 | & bl_value(:)) |
---|
830 | CALL iom_cdf__check(il_status,"IOM CDF READ ATT: ") |
---|
831 | |
---|
832 | iom_cdf__read_att_name=att_init(cl_name, bl_value(:)) |
---|
833 | |
---|
834 | ENDIF |
---|
835 | |
---|
836 | DEALLOCATE(bl_value) |
---|
837 | |
---|
838 | CASE(NF90_SHORT) |
---|
839 | |
---|
840 | ALLOCATE( sl_value( il_len), & |
---|
841 | & stat=il_status) |
---|
842 | IF(il_status /= 0 )THEN |
---|
843 | |
---|
844 | CALL logger_error( & |
---|
845 | & " IOM CDF READ ATT: not enough space to put "//& |
---|
846 | & "attribute "//TRIM(cl_name) ) |
---|
847 | |
---|
848 | ELSE |
---|
849 | |
---|
850 | ! Read the attributes |
---|
851 | il_status=NF90_GET_ATT(td_file%i_id, id_varid, & |
---|
852 | & cl_name, & |
---|
853 | & sl_value(:)) |
---|
854 | CALL iom_cdf__check(il_status,"IOM CDF READ ATT: ") |
---|
855 | |
---|
856 | iom_cdf__read_att_name=att_init(cl_name, sl_value(:)) |
---|
857 | |
---|
858 | ENDIF |
---|
859 | |
---|
860 | DEALLOCATE(sl_value) |
---|
861 | |
---|
862 | CASE(NF90_INT) |
---|
863 | |
---|
864 | ALLOCATE( il_value( il_len), & |
---|
865 | & stat=il_status) |
---|
866 | IF(il_status /= 0 )THEN |
---|
867 | |
---|
868 | CALL logger_error( & |
---|
869 | & " IOM CDF READ ATT: not enough space to put "//& |
---|
870 | & "attribute "//TRIM(cl_name) ) |
---|
871 | |
---|
872 | ELSE |
---|
873 | |
---|
874 | ! Read the attributes |
---|
875 | il_status=NF90_GET_ATT(td_file%i_id, id_varid, & |
---|
876 | & cl_name, & |
---|
877 | & il_value(:)) |
---|
878 | CALL iom_cdf__check(il_status,"IOM CDF READ ATT: ") |
---|
879 | |
---|
880 | iom_cdf__read_att_name=att_init(cl_name, il_value(:)) |
---|
881 | ENDIF |
---|
882 | |
---|
883 | DEALLOCATE(il_value) |
---|
884 | |
---|
885 | CASE(NF90_FLOAT) |
---|
886 | |
---|
887 | ALLOCATE( fl_value( il_len), & |
---|
888 | & stat=il_status) |
---|
889 | IF(il_status /= 0 )THEN |
---|
890 | |
---|
891 | CALL logger_error( & |
---|
892 | & " IOM CDF READ ATT: not enough space to put "//& |
---|
893 | & "attribute "//TRIM(cl_name) ) |
---|
894 | |
---|
895 | ELSE |
---|
896 | |
---|
897 | ! Read the attributes |
---|
898 | il_status=NF90_GET_ATT(td_file%i_id, id_varid, & |
---|
899 | & cl_name, & |
---|
900 | & fl_value(:)) |
---|
901 | CALL iom_cdf__check(il_status,"IOM CDF READ ATT: ") |
---|
902 | |
---|
903 | iom_cdf__read_att_name=att_init(cl_name, fl_value(:)) |
---|
904 | |
---|
905 | ENDIF |
---|
906 | |
---|
907 | DEALLOCATE(fl_value) |
---|
908 | |
---|
909 | CASE(NF90_DOUBLE) |
---|
910 | |
---|
911 | ALLOCATE( dl_value( il_len), & |
---|
912 | & stat=il_status) |
---|
913 | IF(il_status /= 0 )THEN |
---|
914 | |
---|
915 | CALL logger_error( & |
---|
916 | & " IOM CDF READ ATT: not enough space to put "//& |
---|
917 | & "attribute "//TRIM(cl_name) ) |
---|
918 | |
---|
919 | ELSE |
---|
920 | |
---|
921 | ! Read the attributes |
---|
922 | il_status=NF90_GET_ATT(td_file%i_id, id_varid, & |
---|
923 | & cl_name, & |
---|
924 | & dl_value(:)) |
---|
925 | CALL iom_cdf__check(il_status,"IOM CDF READ ATT: ") |
---|
926 | |
---|
927 | iom_cdf__read_att_name=att_init(cl_name, dl_value(:)) |
---|
928 | |
---|
929 | ENDIF |
---|
930 | |
---|
931 | DEALLOCATE(dl_value) |
---|
932 | |
---|
933 | END SELECT |
---|
934 | |
---|
935 | iom_cdf__read_att_name%i_id=il_attid |
---|
936 | |
---|
937 | ENDIF |
---|
938 | |
---|
939 | END FUNCTION iom_cdf__read_att_name |
---|
940 | !------------------------------------------------------------------- |
---|
941 | !> @brief This function read variable or global attribute in an opened |
---|
942 | !> netcdf file, given attribute id. |
---|
943 | ! |
---|
944 | !> @author J.Paul |
---|
945 | !> @date November, 2013 - Initial Version |
---|
946 | ! |
---|
947 | !> @param[in] td_file file structure |
---|
948 | !> @param[in] id_varid variable id. use NF90_GLOBAL to read global |
---|
949 | !> attribute in a file |
---|
950 | !> @param[in] id_attid attribute id |
---|
951 | !> @return attribute structure |
---|
952 | !------------------------------------------------------------------- |
---|
953 | TYPE(TATT) FUNCTION iom_cdf__read_att_id(td_file, id_varid, id_attid) |
---|
954 | IMPLICIT NONE |
---|
955 | ! Argument |
---|
956 | TYPE(TFILE), INTENT(IN) :: td_file |
---|
957 | INTEGER(i4), INTENT(IN) :: id_varid |
---|
958 | INTEGER(i4), INTENT(IN) :: id_attid |
---|
959 | |
---|
960 | ! local variable |
---|
961 | INTEGER(i4) :: il_status |
---|
962 | CHARACTER(LEN=lc) :: cl_name |
---|
963 | !---------------------------------------------------------------- |
---|
964 | ! check if file opened |
---|
965 | IF( td_file%i_id == 0 )THEN |
---|
966 | |
---|
967 | CALL logger_error( & |
---|
968 | & "IOM CDF READ ATT: no id associated to file "//TRIM(td_file%c_name)) |
---|
969 | |
---|
970 | ELSE |
---|
971 | |
---|
972 | ! get attribute name |
---|
973 | il_status=NF90_INQ_ATTNAME(td_file%i_id, id_varid, id_attid, cl_name) |
---|
974 | CALL iom_cdf__check(il_status,"IOM CDF READ ATT: ") |
---|
975 | |
---|
976 | ! read attribute |
---|
977 | iom_cdf__read_att_id=iom_cdf__read_att_name(td_file, id_varid, cl_name) |
---|
978 | |
---|
979 | ENDIF |
---|
980 | |
---|
981 | END FUNCTION iom_cdf__read_att_id |
---|
982 | !------------------------------------------------------------------- |
---|
983 | !> @brief This function read variable value in an opened |
---|
984 | !> netcdf file, given variable id. |
---|
985 | !> @details |
---|
986 | !> Optionaly, start indices and number of indices selected along each dimension |
---|
987 | !> could be specify in a 4 dimension array (/'x','y','z','t'/) |
---|
988 | ! |
---|
989 | !> @author J.Paul |
---|
990 | !> @date November, 2013 - Initial Version |
---|
991 | ! |
---|
992 | !> @param[in] td_file file structure |
---|
993 | !> @param[in] id_varid variable id |
---|
994 | !> @param[in] id_start index in the variable from which the data values |
---|
995 | !> will be read |
---|
996 | !> @param[in] id_count number of indices selected along each dimension |
---|
997 | !> @return variable structure |
---|
998 | !------------------------------------------------------------------- |
---|
999 | TYPE(TVAR) FUNCTION iom_cdf__read_var_id(td_file, id_varid,& |
---|
1000 | & id_start, id_count) |
---|
1001 | IMPLICIT NONE |
---|
1002 | ! Argument |
---|
1003 | TYPE(TFILE), INTENT(IN) :: td_file |
---|
1004 | INTEGER(i4), INTENT(IN) :: id_varid |
---|
1005 | INTEGER(i4), DIMENSION(:), INTENT(IN), OPTIONAL :: id_start |
---|
1006 | INTEGER(i4), DIMENSION(:), INTENT(IN), OPTIONAL :: id_count |
---|
1007 | |
---|
1008 | ! local variable |
---|
1009 | INTEGER(i4), DIMENSION(1) :: il_ind |
---|
1010 | !---------------------------------------------------------------- |
---|
1011 | ! check if file opened |
---|
1012 | IF( td_file%i_id == 0 )THEN |
---|
1013 | |
---|
1014 | CALL logger_error( & |
---|
1015 | & " IOM CDF READ VAR: no id associated to file "//TRIM(td_file%c_name)) |
---|
1016 | |
---|
1017 | ELSE |
---|
1018 | |
---|
1019 | ! look for variable index |
---|
1020 | il_ind(:)=MINLOC(td_file%t_var(:)%i_id,mask=(td_file%t_var(:)%i_id==id_varid)) |
---|
1021 | IF( il_ind(1) /= 0 )THEN |
---|
1022 | |
---|
1023 | iom_cdf__read_var_id=var_copy(td_file%t_var(il_ind(1))) |
---|
1024 | |
---|
1025 | !!! read variable value |
---|
1026 | CALL iom_cdf__read_var_value(td_file, iom_cdf__read_var_id, & |
---|
1027 | & id_start, id_count) |
---|
1028 | |
---|
1029 | ELSE |
---|
1030 | CALL logger_error( & |
---|
1031 | & " IOM CDF READ VAR: there is no variable with id "//& |
---|
1032 | & TRIM(fct_str(id_varid))//" in file "//TRIM(td_file%c_name)) |
---|
1033 | ENDIF |
---|
1034 | |
---|
1035 | ENDIF |
---|
1036 | END FUNCTION iom_cdf__read_var_id |
---|
1037 | !------------------------------------------------------------------- |
---|
1038 | !> @brief This function read variable value in an opened |
---|
1039 | !> netcdf file, given variable name or standard name. |
---|
1040 | !> @details |
---|
1041 | !> Optionaly, start indices and number of indices selected along each dimension |
---|
1042 | !> could be specify in a 4 dimension array (/'x','y','z','t'/) |
---|
1043 | !> |
---|
1044 | !> look first for variable name. If it doesn't |
---|
1045 | !> exist in file, look for variable standard name.<br/> |
---|
1046 | ! |
---|
1047 | !> @author J.Paul |
---|
1048 | !> @date November, 2013 - Initial Version |
---|
1049 | ! |
---|
1050 | !> @param[in] td_file file structure |
---|
1051 | !> @param[in] cd_name variable name or standard name. |
---|
1052 | !> @param[in] id_start index in the variable from which the data values will be read |
---|
1053 | !> @param[in] id_count number of indices selected along each dimension |
---|
1054 | !> @return variable structure |
---|
1055 | !------------------------------------------------------------------- |
---|
1056 | TYPE(TVAR) FUNCTION iom_cdf__read_var_name(td_file, cd_name, & |
---|
1057 | & id_start, id_count ) |
---|
1058 | IMPLICIT NONE |
---|
1059 | ! Argument |
---|
1060 | TYPE(TFILE) , INTENT(IN) :: td_file |
---|
1061 | CHARACTER(LEN=*), INTENT(IN), OPTIONAL :: cd_name |
---|
1062 | INTEGER(i4) , DIMENSION(:), INTENT(IN), OPTIONAL :: id_start |
---|
1063 | INTEGER(i4) , DIMENSION(:), INTENT(IN), OPTIONAL :: id_count |
---|
1064 | |
---|
1065 | ! local variable |
---|
1066 | INTEGER(i4) :: il_varid |
---|
1067 | !---------------------------------------------------------------- |
---|
1068 | ! check if file opened |
---|
1069 | IF( td_file%i_id == 0 )THEN |
---|
1070 | |
---|
1071 | CALL logger_error( & |
---|
1072 | & " IOM CDF READ VAR: no id associated to file "//TRIM(td_file%c_name)) |
---|
1073 | |
---|
1074 | ELSE |
---|
1075 | |
---|
1076 | IF( .NOT. PRESENT(cd_name) )THEN |
---|
1077 | |
---|
1078 | CALL logger_error( & |
---|
1079 | & " IOM CDF READ VAR: you must specify a variable to read "//& |
---|
1080 | & " in file "//TRIM(td_file%c_name)) |
---|
1081 | |
---|
1082 | ELSE |
---|
1083 | |
---|
1084 | il_varid=var_get_index(td_file%t_var(:), cd_name) |
---|
1085 | IF( il_varid /= 0 )THEN |
---|
1086 | |
---|
1087 | iom_cdf__read_var_name=var_copy(td_file%t_var(il_varid)) |
---|
1088 | |
---|
1089 | !!! read variable value |
---|
1090 | CALL iom_cdf__read_var_value( td_file, & |
---|
1091 | & iom_cdf__read_var_name, & |
---|
1092 | & id_start, id_count) |
---|
1093 | |
---|
1094 | ELSE |
---|
1095 | |
---|
1096 | CALL logger_error( & |
---|
1097 | & " IOM CDF READ VAR: there is no variable with "//& |
---|
1098 | & " name or standard name "//TRIM(cd_name)//& |
---|
1099 | & " in file "//TRIM(td_file%c_name) ) |
---|
1100 | ENDIF |
---|
1101 | |
---|
1102 | ENDIF |
---|
1103 | |
---|
1104 | ENDIF |
---|
1105 | |
---|
1106 | END FUNCTION iom_cdf__read_var_name |
---|
1107 | !------------------------------------------------------------------- |
---|
1108 | !> @brief This subroutine fill all variable value from an opened |
---|
1109 | !> netcdf file. |
---|
1110 | !> @details |
---|
1111 | !> Optionaly, start indices and number of indices selected along each dimension |
---|
1112 | !> could be specify in a 4 dimension array (/'x','y','z','t'/) |
---|
1113 | ! |
---|
1114 | !> @author J.Paul |
---|
1115 | !> @date November, 2013 - Initial Version |
---|
1116 | ! |
---|
1117 | !> @param[inout] td_file file structure |
---|
1118 | !> @param[in] id_start index in the variable from which the data values |
---|
1119 | !> will be read |
---|
1120 | !> @param[in] id_count number of indices selected along each dimension |
---|
1121 | !------------------------------------------------------------------- |
---|
1122 | SUBROUTINE iom_cdf__fill_var_all(td_file, id_start, id_count) |
---|
1123 | IMPLICIT NONE |
---|
1124 | ! Argument |
---|
1125 | TYPE(TFILE), INTENT(INOUT) :: td_file |
---|
1126 | INTEGER(i4), DIMENSION(:), INTENT(IN ), OPTIONAL :: id_start |
---|
1127 | INTEGER(i4), DIMENSION(:), INTENT(IN ), OPTIONAL :: id_count |
---|
1128 | |
---|
1129 | ! local variable |
---|
1130 | |
---|
1131 | ! loop indices |
---|
1132 | INTEGER(i4) :: ji |
---|
1133 | !---------------------------------------------------------------- |
---|
1134 | ! check if file opened |
---|
1135 | IF( td_file%i_id == 0 )THEN |
---|
1136 | |
---|
1137 | CALL logger_error( & |
---|
1138 | & " IOM CDF FILL VAR: no id associated to file "//TRIM(td_file%c_name)) |
---|
1139 | |
---|
1140 | ELSE |
---|
1141 | |
---|
1142 | DO ji=1,td_file%i_nvar |
---|
1143 | CALL iom_cdf_fill_var(td_file, td_file%t_var(ji)%i_id, & |
---|
1144 | & id_start, id_count) |
---|
1145 | ENDDO |
---|
1146 | |
---|
1147 | ENDIF |
---|
1148 | END SUBROUTINE iom_cdf__fill_var_all |
---|
1149 | !------------------------------------------------------------------- |
---|
1150 | !> @brief This subroutine fill variable value in an opened |
---|
1151 | !> netcdf file, given variable id. |
---|
1152 | !> @details |
---|
1153 | !> Optionaly, start indices and number of indices selected along each dimension |
---|
1154 | !> could be specify in a 4 dimension array (/'x','y','z','t'/) |
---|
1155 | ! |
---|
1156 | !> @author J.Paul |
---|
1157 | !> @date November, 2013 - Initial Version |
---|
1158 | ! |
---|
1159 | !> @param[inout] td_file file structure |
---|
1160 | !> @param[in] id_varid variable id |
---|
1161 | !> @param[in] id_start index in the variable from which the data values |
---|
1162 | !> will be read |
---|
1163 | !> @param[in] id_count number of indices selected along each dimension |
---|
1164 | !------------------------------------------------------------------- |
---|
1165 | SUBROUTINE iom_cdf__fill_var_id(td_file, id_varid, id_start, id_count) |
---|
1166 | IMPLICIT NONE |
---|
1167 | ! Argument |
---|
1168 | TYPE(TFILE), INTENT(INOUT) :: td_file |
---|
1169 | INTEGER(i4), INTENT(IN) :: id_varid |
---|
1170 | INTEGER(i4), DIMENSION(:), INTENT(IN), OPTIONAL :: id_start |
---|
1171 | INTEGER(i4), DIMENSION(:), INTENT(IN), OPTIONAL :: id_count |
---|
1172 | |
---|
1173 | ! local variable |
---|
1174 | INTEGER(i4), DIMENSION(1) :: il_varid |
---|
1175 | |
---|
1176 | ! loop indices |
---|
1177 | INTEGER(i4) :: ji |
---|
1178 | !---------------------------------------------------------------- |
---|
1179 | ! check if file opened |
---|
1180 | IF( td_file%i_id == 0 )THEN |
---|
1181 | |
---|
1182 | CALL logger_error( & |
---|
1183 | & "IOM CDF FILL VAR: no id associated to file "//TRIM(td_file%c_name)) |
---|
1184 | |
---|
1185 | ELSE |
---|
1186 | |
---|
1187 | ! look for variable id |
---|
1188 | il_varid(:)=MINLOC( td_file%t_var(:)%i_id, & |
---|
1189 | & mask=(td_file%t_var(:)%i_id==id_varid)) |
---|
1190 | IF( il_varid(1) /= 0 )THEN |
---|
1191 | |
---|
1192 | !!! read variable value |
---|
1193 | CALL iom_cdf__read_var_value(td_file, td_file%t_var(il_varid(1)), & |
---|
1194 | & id_start, id_count) |
---|
1195 | |
---|
1196 | DO ji=1,td_file%i_nvar |
---|
1197 | CALL logger_debug(" IOM CDF FILL VAR: var id "//& |
---|
1198 | & TRIM(td_file%t_var(ji)%c_name)//" "//& |
---|
1199 | & TRIM(fct_str(td_file%t_var(ji)%i_id)) ) |
---|
1200 | ENDDO |
---|
1201 | ELSE |
---|
1202 | CALL logger_error( & |
---|
1203 | & " IOM CDF FILL VAR: there is no variable with id "//& |
---|
1204 | & TRIM(fct_str(id_varid))//" in file "//TRIM(td_file%c_name)) |
---|
1205 | ENDIF |
---|
1206 | |
---|
1207 | ENDIF |
---|
1208 | END SUBROUTINE iom_cdf__fill_var_id |
---|
1209 | !------------------------------------------------------------------- |
---|
1210 | !> @brief This subroutine fill variable value in an opened |
---|
1211 | !> netcdf file, given variable name or standard name. |
---|
1212 | !> @details |
---|
1213 | !> Optionaly, start indices and number of indices selected along each dimension |
---|
1214 | !> could be specify in a 4 dimension array (/'x','y','z','t'/) |
---|
1215 | !> |
---|
1216 | !> look first for variable name. If it doesn't |
---|
1217 | !> exist in file, look for variable standard name.<br/> |
---|
1218 | ! |
---|
1219 | !> @author J.Paul |
---|
1220 | !> @date November, 2013 - Initial Version |
---|
1221 | ! |
---|
1222 | !> @param[inout] td_file file structure |
---|
1223 | !> @param[in] cd_name variable name or standard name |
---|
1224 | !> @param[in] id_start index in the variable from which the data values will be read |
---|
1225 | !> @param[in] id_count number of indices selected along each dimension |
---|
1226 | !------------------------------------------------------------------- |
---|
1227 | SUBROUTINE iom_cdf__fill_var_name(td_file, cd_name, id_start, id_count ) |
---|
1228 | IMPLICIT NONE |
---|
1229 | ! Argument |
---|
1230 | TYPE(TFILE), INTENT(INOUT) :: td_file |
---|
1231 | CHARACTER(LEN=*), INTENT(IN) :: cd_name |
---|
1232 | INTEGER(i4), DIMENSION(:), INTENT(IN), OPTIONAL :: id_start |
---|
1233 | INTEGER(i4), DIMENSION(:), INTENT(IN), OPTIONAL :: id_count |
---|
1234 | |
---|
1235 | ! local variable |
---|
1236 | INTEGER(i4) :: il_varid |
---|
1237 | !---------------------------------------------------------------- |
---|
1238 | ! check if file opened |
---|
1239 | IF( td_file%i_id == 0 )THEN |
---|
1240 | |
---|
1241 | CALL logger_error( & |
---|
1242 | & "IOM CDF FILL VAR: no id associated to file "//TRIM(td_file%c_name)) |
---|
1243 | |
---|
1244 | ELSE |
---|
1245 | |
---|
1246 | il_varid=var_get_index(td_file%t_var(:), cd_name) |
---|
1247 | IF( il_varid /= 0 )THEN |
---|
1248 | |
---|
1249 | !!! read variable value |
---|
1250 | CALL iom_cdf__read_var_value(td_file, td_file%t_var(il_varid), & |
---|
1251 | & id_start, id_count) |
---|
1252 | |
---|
1253 | ELSE |
---|
1254 | |
---|
1255 | CALL logger_error( & |
---|
1256 | & "IOM CDF FILL VAR: there is no variable with "//& |
---|
1257 | & "name or standard name"//TRIM(cd_name)//& |
---|
1258 | & " in file "//TRIM(td_file%c_name)) |
---|
1259 | ENDIF |
---|
1260 | |
---|
1261 | ENDIF |
---|
1262 | |
---|
1263 | END SUBROUTINE iom_cdf__fill_var_name |
---|
1264 | !------------------------------------------------------------------- |
---|
1265 | !> @brief This function read metadata of a variable in an opened |
---|
1266 | !> netcdf file. |
---|
1267 | ! |
---|
1268 | !> @note variable value are not read |
---|
1269 | ! |
---|
1270 | !> @author J.Paul |
---|
1271 | !> @date November, 2013 - Initial Version |
---|
1272 | !> @date September, 2014 |
---|
1273 | !> - force to use FillValue=1.e20 if no FillValue for coordinate variable. |
---|
1274 | !> @date September, 2015 |
---|
1275 | !> - manage useless (dummy) attribute |
---|
1276 | ! |
---|
1277 | !> @param[in] td_file file structure |
---|
1278 | !> @param[in] id_varid variable id |
---|
1279 | !> @return variable structure |
---|
1280 | !------------------------------------------------------------------- |
---|
1281 | TYPE(TVAR) FUNCTION iom_cdf__read_var_meta(td_file, id_varid) |
---|
1282 | IMPLICIT NONE |
---|
1283 | ! Argument |
---|
1284 | TYPE(TFILE), INTENT(IN) :: td_file |
---|
1285 | INTEGER(i4), INTENT(IN) :: id_varid |
---|
1286 | |
---|
1287 | ! local variable |
---|
1288 | CHARACTER(LEN=lc) :: cl_name |
---|
1289 | |
---|
1290 | INTEGER(i4) :: il_status |
---|
1291 | INTEGER(i4) :: il_type |
---|
1292 | INTEGER(i4) :: il_ndim |
---|
1293 | INTEGER(i4) :: il_natt |
---|
1294 | INTEGER(i4) :: il_attid |
---|
1295 | INTEGER(i4), DIMENSION(NF90_MAX_VAR_DIMS) :: il_dimid |
---|
1296 | |
---|
1297 | TYPE(TDIM) , DIMENSION(ip_maxdim) :: tl_dim |
---|
1298 | TYPE(TATT) :: tl_fill |
---|
1299 | TYPE(TATT) , DIMENSION(:) , ALLOCATABLE :: tl_att |
---|
1300 | TYPE(TATT) , DIMENSION(:) , ALLOCATABLE :: tl_tmp |
---|
1301 | |
---|
1302 | ! loop indices |
---|
1303 | INTEGER(i4) :: ji |
---|
1304 | !---------------------------------------------------------------- |
---|
1305 | ! check if file opened |
---|
1306 | IF( td_file%i_id == 0 )THEN |
---|
1307 | |
---|
1308 | CALL logger_error( & |
---|
1309 | & " IOM CDF READ VAR META: no id associated to file "//& |
---|
1310 | & TRIM(td_file%c_name)) |
---|
1311 | |
---|
1312 | ELSE |
---|
1313 | |
---|
1314 | ! inquire variable |
---|
1315 | CALL logger_debug( & |
---|
1316 | & " IOM CDF READ VAR META: inquire variable "//& |
---|
1317 | & TRIM(fct_str(id_varid))//& |
---|
1318 | & " in file "//TRIM(td_file%c_name)) |
---|
1319 | |
---|
1320 | il_dimid(:)=0 |
---|
1321 | |
---|
1322 | il_status=NF90_INQUIRE_VARIABLE( td_file%i_id, id_varid, & |
---|
1323 | & cl_name, & |
---|
1324 | & il_type, & |
---|
1325 | & il_ndim, & |
---|
1326 | & il_dimid(:),& |
---|
1327 | & il_natt ) |
---|
1328 | CALL iom_cdf__check(il_status,"IOM CDF READ VAR META: ") |
---|
1329 | |
---|
1330 | !!! fill variable dimension structure |
---|
1331 | tl_dim(:)=iom_cdf__read_var_dim( td_file, il_ndim, cl_name, il_dimid(:) ) |
---|
1332 | |
---|
1333 | IF( il_natt /= 0 )THEN |
---|
1334 | ALLOCATE( tl_att(il_natt) ) |
---|
1335 | !!! fill variable attribute structure |
---|
1336 | tl_att(:)=iom_cdf__read_var_att(td_file, id_varid, il_natt) |
---|
1337 | |
---|
1338 | !! look for _FillValue. if none add one |
---|
1339 | il_attid=att_get_id(tl_att(:),'_FillValue') |
---|
1340 | IF( il_attid == 0 )THEN |
---|
1341 | CALL logger_info("IOM CDF READ VAR META: no _FillValue for variable "//& |
---|
1342 | & TRIM(cl_name)//" in file "//TRIM(td_file%c_name) ) |
---|
1343 | |
---|
1344 | il_attid=att_get_id(tl_att(:),'missing_value') |
---|
1345 | IF( il_attid /= 0 )THEN |
---|
1346 | ! create attribute _FillValue |
---|
1347 | CALL logger_info("IOM CDF READ VAR META: assume _FillValue is equal to "//& |
---|
1348 | & "missing_value for variable "//TRIM(cl_name) ) |
---|
1349 | tl_fill=att_init('_FillValue',tl_att(il_attid)%d_value(:), & |
---|
1350 | & id_type=tl_att(il_attid)%i_type) |
---|
1351 | ELSE |
---|
1352 | ! create attribute _FillValue |
---|
1353 | SELECT CASE(TRIM(fct_lower(cl_name))) |
---|
1354 | CASE DEFAULT |
---|
1355 | CALL logger_info("IOM CDF READ VAR META: assume _FillValue is equal to "//& |
---|
1356 | & "zero for variable "//TRIM(cl_name) ) |
---|
1357 | tl_fill=att_init('_FillValue',0.) |
---|
1358 | CASE('nav_lon','nav_lat', 'nav_lev', & |
---|
1359 | & 'glamt','glamu','glamv','glamf', & |
---|
1360 | & 'gphit','gphiu','gphiv','gphif') |
---|
1361 | CALL logger_info("IOM CDF READ VAR META: assume _FillValue is equal to "//& |
---|
1362 | & "dummy fillValue (1.e20) for variable "//TRIM(cl_name) ) |
---|
1363 | tl_fill=att_init('_FillValue',1.e20) |
---|
1364 | END SELECT |
---|
1365 | ENDIF |
---|
1366 | |
---|
1367 | ALLOCATE( tl_tmp(il_natt) ) |
---|
1368 | ! save read attribut |
---|
1369 | tl_tmp(:)=att_copy(tl_att(:)) |
---|
1370 | ! change number of attribute in array |
---|
1371 | CALL att_clean(tl_att(:)) |
---|
1372 | DEALLOCATE( tl_att ) |
---|
1373 | ALLOCATE( tl_att(il_natt+1) ) |
---|
1374 | ! copy read attribut |
---|
1375 | tl_att(1:il_natt)=att_copy(tl_tmp(:)) |
---|
1376 | ! clean |
---|
1377 | CALL att_clean(tl_tmp(:)) |
---|
1378 | DEALLOCATE( tl_tmp ) |
---|
1379 | |
---|
1380 | ! create attribute _FillValue |
---|
1381 | tl_att(il_natt+1)=att_copy(tl_fill) |
---|
1382 | |
---|
1383 | ENDIF |
---|
1384 | |
---|
1385 | ELSE |
---|
1386 | ALLOCATE(tl_att(il_natt+1) ) |
---|
1387 | ! create attribute _FillValue |
---|
1388 | SELECT CASE(TRIM(fct_lower(cl_name))) |
---|
1389 | CASE DEFAULT |
---|
1390 | CALL logger_info("IOM CDF READ VAR META: assume _FillValue is equal to "//& |
---|
1391 | & "zero for variable "//TRIM(cl_name) ) |
---|
1392 | tl_fill=att_init('_FillValue',0.) |
---|
1393 | CASE('nav_lon','nav_lat', & |
---|
1394 | & 'glamt','glamu','glamv','glamf', & |
---|
1395 | & 'gphit','gphiu','gphiv','gphif') |
---|
1396 | CALL logger_info("IOM CDF READ VAR META: assume _FillValue is equal to "//& |
---|
1397 | & "dummy fillValue (1.e20) for variable "//TRIM(cl_name) ) |
---|
1398 | tl_fill=att_init('_FillValue',1.e20) |
---|
1399 | END SELECT |
---|
1400 | ! create attribute _FillValue |
---|
1401 | tl_att(il_natt+1)=att_copy(tl_fill) |
---|
1402 | ENDIF |
---|
1403 | |
---|
1404 | !! initialize variable |
---|
1405 | iom_cdf__read_var_meta=var_init( cl_name, il_type, tl_dim(:), & |
---|
1406 | & tl_att(:), id_id=id_varid ) |
---|
1407 | |
---|
1408 | !! look for dummy attribute |
---|
1409 | DO ji=il_natt,1,-1 |
---|
1410 | IF( att_is_dummy(tl_att(ji)) )THEN |
---|
1411 | CALL var_del_att(iom_cdf__read_var_meta, tl_att(ji)) |
---|
1412 | ENDIF |
---|
1413 | ENDDO |
---|
1414 | |
---|
1415 | ! clean |
---|
1416 | CALL dim_clean(tl_dim(:)) |
---|
1417 | CALL att_clean(tl_fill) |
---|
1418 | CALL att_clean(tl_att(:)) |
---|
1419 | DEALLOCATE( tl_att ) |
---|
1420 | |
---|
1421 | ENDIF |
---|
1422 | |
---|
1423 | END FUNCTION iom_cdf__read_var_meta |
---|
1424 | !------------------------------------------------------------------- |
---|
1425 | !> @brief This subroutine read variable dimension |
---|
1426 | !> in an opened netcdf file. |
---|
1427 | !> |
---|
1428 | !> @details |
---|
1429 | !> the number of dimension can't exceed 4, |
---|
1430 | !> and should be 'x', 'y', 'z', 't' (whatever their order).<br/> |
---|
1431 | !> If the number of dimension read is less than 4, the array of dimension |
---|
1432 | !> strucure is filled with unused dimension.<br/> |
---|
1433 | !> So the array of dimension structure of a variable is always compose of 4 |
---|
1434 | !> dimension (use or not). |
---|
1435 | !> |
---|
1436 | !> @warn dummy dimension are not used. |
---|
1437 | !> |
---|
1438 | !> @author J.Paul |
---|
1439 | !> @date November, 2013 - Initial Version |
---|
1440 | !> @date July, 2015 |
---|
1441 | !> - Bug fix: use order to disorder table (see dim_init) |
---|
1442 | !> @date September, 2015 |
---|
1443 | !> - check dummy dimension |
---|
1444 | !> |
---|
1445 | !> @param[in] td_file file structure |
---|
1446 | !> @param[in] id_ndim number of dimension |
---|
1447 | !> @param[in] cd_name variable name |
---|
1448 | !> @param[in] id_dimid array of dimension id |
---|
1449 | !> @return array dimension structure |
---|
1450 | !------------------------------------------------------------------- |
---|
1451 | FUNCTION iom_cdf__read_var_dim(td_file, id_ndim, cd_name, id_dimid) |
---|
1452 | IMPLICIT NONE |
---|
1453 | ! Argument |
---|
1454 | TYPE(TFILE), INTENT(IN) :: td_file |
---|
1455 | INTEGER(i4), INTENT(IN) :: id_ndim |
---|
1456 | CHARACTER(LEN=*) , INTENT(IN) :: cd_name |
---|
1457 | INTEGER(i4), DIMENSION(:), INTENT(IN) :: id_dimid |
---|
1458 | |
---|
1459 | ! function |
---|
1460 | TYPE(TDIM), DIMENSION(ip_maxdim) :: iom_cdf__read_var_dim |
---|
1461 | |
---|
1462 | ! local variable |
---|
1463 | INTEGER(i4), DIMENSION(ip_maxdim) :: il_xyzt2 |
---|
1464 | |
---|
1465 | TYPE(TDIM) , DIMENSION(ip_maxdim) :: tl_dim |
---|
1466 | |
---|
1467 | ! loop indices |
---|
1468 | INTEGER(i4) :: ji |
---|
1469 | INTEGER(i4) :: ii |
---|
1470 | !---------------------------------------------------------------- |
---|
1471 | |
---|
1472 | IF( id_ndim == 0 )THEN |
---|
1473 | |
---|
1474 | tl_dim(:)%l_use=.FALSE. |
---|
1475 | |
---|
1476 | ! reorder dimension to ('x','y','z','t') |
---|
1477 | CALL dim_reorder(tl_dim(:)) |
---|
1478 | |
---|
1479 | iom_cdf__read_var_dim(:)=dim_copy(tl_dim(:)) |
---|
1480 | |
---|
1481 | ! clean |
---|
1482 | CALL dim_clean(tl_dim(:)) |
---|
1483 | |
---|
1484 | ELSE IF( id_ndim > 0 )THEN |
---|
1485 | |
---|
1486 | |
---|
1487 | ii=1 |
---|
1488 | DO ji = 1, id_ndim |
---|
1489 | |
---|
1490 | !!! check no dummy dimension to be used |
---|
1491 | IF( ANY(td_file%t_dim(:)%i_id == id_dimid(ji)) )THEN |
---|
1492 | IF( ii > ip_maxdim )THEN |
---|
1493 | CALL logger_error(" IOM CDF READ VAR DIM: "//& |
---|
1494 | & "too much dimensions for variable "//& |
---|
1495 | & TRIM(cd_name)//". check dummy configuration file.") |
---|
1496 | ENDIF |
---|
1497 | |
---|
1498 | CALL logger_debug( " IOM CDF READ VAR DIM: get variable "//& |
---|
1499 | & "dimension "//TRIM(fct_str(ji)) ) |
---|
1500 | |
---|
1501 | il_xyzt2(ii)=td_file%t_dim(id_dimid(ji))%i_xyzt2 |
---|
1502 | |
---|
1503 | ! read dimension information |
---|
1504 | tl_dim(ii) = dim_init( td_file%t_dim(il_xyzt2(ii))%c_name, & |
---|
1505 | & td_file%t_dim(il_xyzt2(ii))%i_len ) |
---|
1506 | |
---|
1507 | ii=ii+1 |
---|
1508 | ELSE |
---|
1509 | CALL logger_debug( " IOM CDF READ VAR DIM: dummy variable "//& |
---|
1510 | & "dimension "//TRIM(fct_str(ji))//" not used." ) |
---|
1511 | ENDIF |
---|
1512 | ENDDO |
---|
1513 | |
---|
1514 | ! reorder dimension to ('x','y','z','t') |
---|
1515 | CALL dim_reorder(tl_dim(:)) |
---|
1516 | |
---|
1517 | iom_cdf__read_var_dim(:)=dim_copy(tl_dim(:)) |
---|
1518 | |
---|
1519 | ! clean |
---|
1520 | CALL dim_clean(tl_dim(:)) |
---|
1521 | |
---|
1522 | ENDIF |
---|
1523 | |
---|
1524 | END FUNCTION iom_cdf__read_var_dim |
---|
1525 | !------------------------------------------------------------------- |
---|
1526 | !> @brief This subroutine read variable attributes |
---|
1527 | !> in an opened netcdf file. |
---|
1528 | ! |
---|
1529 | !> @author J.Paul |
---|
1530 | !> @date November, 2013 - Initial Version |
---|
1531 | ! |
---|
1532 | !> @param[in] td_file file structure |
---|
1533 | !> @param[in] id_varid variable id |
---|
1534 | !> @param[in] id_natt number of attributes |
---|
1535 | !> @return array of attribute structure |
---|
1536 | !------------------------------------------------------------------- |
---|
1537 | FUNCTION iom_cdf__read_var_att(td_file, id_varid, id_natt) |
---|
1538 | IMPLICIT NONE |
---|
1539 | ! Argument |
---|
1540 | TYPE(TFILE), INTENT(IN) :: td_file |
---|
1541 | INTEGER(i4), INTENT(IN) :: id_varid |
---|
1542 | INTEGER(i4), INTENT(IN) :: id_natt |
---|
1543 | |
---|
1544 | ! function |
---|
1545 | TYPE(TATT), DIMENSION(id_natt) :: iom_cdf__read_var_att |
---|
1546 | |
---|
1547 | ! local variable |
---|
1548 | |
---|
1549 | ! loop indices |
---|
1550 | INTEGER(i4) :: ji |
---|
1551 | !---------------------------------------------------------------- |
---|
1552 | |
---|
1553 | IF( id_natt > 0 )THEN |
---|
1554 | |
---|
1555 | ! read attributes |
---|
1556 | DO ji = 1, id_natt |
---|
1557 | CALL logger_trace( " IOM CDF READ VAR ATT: get attribute "//& |
---|
1558 | & TRIM(fct_str(ji)) ) |
---|
1559 | |
---|
1560 | iom_cdf__read_var_att(ji)=iom_cdf_read_att(td_file, id_varid, ji) |
---|
1561 | |
---|
1562 | ENDDO |
---|
1563 | |
---|
1564 | ELSE |
---|
1565 | |
---|
1566 | CALL logger_debug( " IOM CDF READ VAR ATT: no attribute for variable " ) |
---|
1567 | |
---|
1568 | ENDIF |
---|
1569 | |
---|
1570 | END FUNCTION iom_cdf__read_var_att |
---|
1571 | !------------------------------------------------------------------- |
---|
1572 | !> @brief This subroutine read variable value |
---|
1573 | !> in an opened netcdf file. |
---|
1574 | !> @details |
---|
1575 | !> Optionaly, start indices and number of indices selected along each dimension |
---|
1576 | !> could be specify in a 4 dimension array (/'x','y','z','t'/) |
---|
1577 | ! |
---|
1578 | !> @author J.Paul |
---|
1579 | !> @date November, 2013 - Initial Version |
---|
1580 | !> @date June, 2015 |
---|
1581 | !> - use scale factor and offset, as soon as read variable value |
---|
1582 | ! |
---|
1583 | !> @param[in] td_file file structure |
---|
1584 | !> @param[inout] td_var variable structure |
---|
1585 | !> @param[in] id_start index in the variable from which the data values will be read |
---|
1586 | !> @param[in] id_count number of indices selected along each dimension |
---|
1587 | !> @return variable structure completed |
---|
1588 | !------------------------------------------------------------------- |
---|
1589 | SUBROUTINE iom_cdf__read_var_value(td_file, td_var, & |
---|
1590 | & id_start, id_count ) |
---|
1591 | IMPLICIT NONE |
---|
1592 | ! Argument |
---|
1593 | TYPE(TFILE), INTENT(IN) :: td_file |
---|
1594 | TYPE(TVAR) , INTENT(INOUT) :: td_var |
---|
1595 | INTEGER(i4), DIMENSION(:), INTENT(IN), OPTIONAL :: id_start |
---|
1596 | INTEGER(i4), DIMENSION(:), INTENT(IN), OPTIONAL :: id_count |
---|
1597 | |
---|
1598 | ! local variable |
---|
1599 | INTEGER(i4) :: il_status |
---|
1600 | INTEGER(i4) :: il_tmp1 |
---|
1601 | INTEGER(i4) :: il_tmp2 |
---|
1602 | INTEGER(i4) :: il_varid |
---|
1603 | INTEGER(i4), DIMENSION(ip_maxdim) :: il_start |
---|
1604 | INTEGER(i4), DIMENSION(ip_maxdim) :: il_count |
---|
1605 | INTEGER(i4), DIMENSION(ip_maxdim) :: il_start_ord |
---|
1606 | INTEGER(i4), DIMENSION(ip_maxdim) :: il_count_ord |
---|
1607 | |
---|
1608 | REAL(dp) , DIMENSION(:,:,:,:) , ALLOCATABLE :: dl_value |
---|
1609 | REAL(dp) , DIMENSION(:,:,:,:) , ALLOCATABLE :: dl_tmp |
---|
1610 | |
---|
1611 | ! loop indices |
---|
1612 | INTEGER(i4) :: ji |
---|
1613 | !---------------------------------------------------------------- |
---|
1614 | |
---|
1615 | ! check if variable in file structure |
---|
1616 | il_varid=var_get_id(td_file%t_var(:),TRIM(td_var%c_name)) |
---|
1617 | IF( il_varid /= 0 )THEN |
---|
1618 | |
---|
1619 | ! check id_count and id_start optionals parameters... |
---|
1620 | IF( ( PRESENT(id_start) .AND. (.NOT. PRESENT(id_count))) .OR. & |
---|
1621 | ((.NOT. PRESENT(id_start)) .AND. PRESENT(id_count) ) )THEN |
---|
1622 | CALL logger_warn( "IOM CDF READ VAR VALUE: id_start and id_count"//& |
---|
1623 | & " should be both specify") |
---|
1624 | ENDIF |
---|
1625 | IF( PRESENT(id_start).AND.PRESENT(id_count) )THEN |
---|
1626 | |
---|
1627 | IF( SIZE(id_start(:)) /= ip_maxdim .OR. & |
---|
1628 | & SIZE(id_count(:)) /= ip_maxdim )THEN |
---|
1629 | CALL logger_error("IOM CDF READ VAR: dimension of array start"//& |
---|
1630 | & " or count are invalid to read variable "//& |
---|
1631 | & TRIM(td_var%c_name)//" in file "//TRIM(td_file%c_name) ) |
---|
1632 | ENDIF |
---|
1633 | |
---|
1634 | ! change dimension order from ('x','y','z','t') |
---|
1635 | il_start(:)=dim_reorder_xyzt2(td_var%t_dim, id_start(:)) |
---|
1636 | il_count(:)=dim_reorder_xyzt2(td_var%t_dim, id_count(:)) |
---|
1637 | |
---|
1638 | ! keep ordered array ('x','y','z','t') |
---|
1639 | il_start_ord(:)=id_start(:) |
---|
1640 | il_count_ord(:)=id_count(:) |
---|
1641 | |
---|
1642 | ELSE |
---|
1643 | |
---|
1644 | ! change dimension order from ('x','y','z','t') |
---|
1645 | il_start(:)=(/1,1,1,1/) |
---|
1646 | il_count(:)=dim_reorder_xyzt2(td_var%t_dim(:),td_var%t_dim(:)%i_len) |
---|
1647 | |
---|
1648 | ! keep ordered array ('x','y','z','t') |
---|
1649 | il_start_ord(:)=(/1,1,1,1/) |
---|
1650 | il_count_ord(:)=td_var%t_dim(:)%i_len |
---|
1651 | |
---|
1652 | ENDIF |
---|
1653 | |
---|
1654 | ! check dimension |
---|
1655 | IF( .NOT. ALL(il_start_ord(:)>=(/1,1,1,1/)) )THEN |
---|
1656 | |
---|
1657 | CALL logger_error( "IOM CDF READ VAR VALUE: start indices should"//& |
---|
1658 | & " be greater than or equal to 1") |
---|
1659 | |
---|
1660 | ENDIF |
---|
1661 | |
---|
1662 | IF(.NOT.ALL(il_start_ord(:)+il_count_ord(:)-1 <= & |
---|
1663 | & (/td_var%t_dim( 1 )%i_len,& |
---|
1664 | & td_var%t_dim( 2 )%i_len,& |
---|
1665 | & td_var%t_dim( 3 )%i_len,& |
---|
1666 | & td_var%t_dim( 4 )%i_len & |
---|
1667 | & /)) )THEN |
---|
1668 | |
---|
1669 | DO ji = 1, ip_maxdim |
---|
1670 | il_tmp1=il_start_ord(ji)+il_count_ord(ji)-1 |
---|
1671 | il_tmp2=td_var%t_dim(ji)%i_len |
---|
1672 | CALL logger_debug( "IOM CDF READ VAR VALUE: start + count -1:"//& |
---|
1673 | & TRIM(fct_str(il_tmp1))//" variable dimension"//& |
---|
1674 | & TRIM(fct_str(il_tmp2))) |
---|
1675 | ENDDO |
---|
1676 | CALL logger_error( "IOM CDF READ VAR VALUE: start + count exceed "//& |
---|
1677 | & "variable dimension for "//TRIM(td_var%c_name) ) |
---|
1678 | |
---|
1679 | ELSE |
---|
1680 | |
---|
1681 | ! Allocate space to hold variable value (disorder) |
---|
1682 | ALLOCATE(dl_value( il_count(1), & |
---|
1683 | & il_count(2), & |
---|
1684 | & il_count(3), & |
---|
1685 | & il_count(4)),& |
---|
1686 | & stat=il_status) |
---|
1687 | IF( il_status /= 0 )THEN |
---|
1688 | |
---|
1689 | CALL logger_error( & |
---|
1690 | & "IOM CDF READ VAR VALUE: not enough space to put variable "//& |
---|
1691 | & TRIM(td_var%c_name)) |
---|
1692 | |
---|
1693 | ENDIF |
---|
1694 | |
---|
1695 | ! read values |
---|
1696 | CALL logger_debug( & |
---|
1697 | & "IOM CDF READ VAR VALUE: get variable "//TRIM(td_var%c_name)//& |
---|
1698 | & " in file "//TRIM(td_file%c_name)) |
---|
1699 | |
---|
1700 | il_status = NF90_GET_VAR( td_file%i_id, il_varid, & |
---|
1701 | & dl_value(:,:,:,:), & |
---|
1702 | & start = il_start(:),& |
---|
1703 | & count = il_count(:) ) |
---|
1704 | CALL iom_cdf__check(il_status,"IOM CDF READ VAR VALUE: ") |
---|
1705 | |
---|
1706 | ! Allocate space to hold variable value in structure |
---|
1707 | IF( ASSOCIATED(td_var%d_value) )THEN |
---|
1708 | DEALLOCATE(td_var%d_value) |
---|
1709 | ENDIF |
---|
1710 | |
---|
1711 | ! new dimension length |
---|
1712 | td_var%t_dim(:)%i_len=il_count_ord(:) |
---|
1713 | |
---|
1714 | !> dummy patch for pgf95 |
---|
1715 | ALLOCATE( dl_tmp( td_var%t_dim(1)%i_len, & |
---|
1716 | & td_var%t_dim(2)%i_len, & |
---|
1717 | & td_var%t_dim(3)%i_len, & |
---|
1718 | & td_var%t_dim(4)%i_len),& |
---|
1719 | & stat=il_status) |
---|
1720 | IF(il_status /= 0 )THEN |
---|
1721 | |
---|
1722 | CALL logger_error( & |
---|
1723 | & "IOM CDF READ VAR VALUE: not enough space to put variable "//& |
---|
1724 | & TRIM(td_var%c_name)//& |
---|
1725 | & " in variable structure") |
---|
1726 | ENDIF |
---|
1727 | dl_tmp(:,:,:,:)=td_var%d_fill |
---|
1728 | |
---|
1729 | ! reshape values to be ordered as ('x','y','z','t') |
---|
1730 | dl_tmp(:,:,:,:)=dim_reshape_2xyzt(td_var%t_dim(:), & |
---|
1731 | & dl_value(:,:,:,:)) |
---|
1732 | |
---|
1733 | DEALLOCATE(dl_value) |
---|
1734 | |
---|
1735 | ALLOCATE(td_var%d_value( td_var%t_dim(1)%i_len, & |
---|
1736 | & td_var%t_dim(2)%i_len, & |
---|
1737 | & td_var%t_dim(3)%i_len, & |
---|
1738 | & td_var%t_dim(4)%i_len),& |
---|
1739 | & stat=il_status) |
---|
1740 | IF(il_status /= 0 )THEN |
---|
1741 | |
---|
1742 | CALL logger_error( & |
---|
1743 | & "IOM CDF READ VAR VALUE: not enough space to put variable "//& |
---|
1744 | & TRIM(td_var%c_name)//& |
---|
1745 | & " in variable structure") |
---|
1746 | |
---|
1747 | ENDIF |
---|
1748 | ! ! FillValue by default |
---|
1749 | ! td_var%d_value(:,:,:,:)=td_var%d_fill |
---|
1750 | ! |
---|
1751 | ! ! reshape values to be ordered as ('x','y','z','t') |
---|
1752 | ! td_var%d_value(:,:,:,:)=dim_reshape_2xyzt(td_var%t_dim(:), & |
---|
1753 | ! & dl_value(:,:,:,:)) |
---|
1754 | ! |
---|
1755 | ! DEALLOCATE(dl_value) |
---|
1756 | |
---|
1757 | td_var%d_value(:,:,:,:)=dl_tmp(:,:,:,:) |
---|
1758 | DEALLOCATE(dl_tmp) |
---|
1759 | !< dummy patch for pgf95 |
---|
1760 | |
---|
1761 | ! force to change _FillValue to avoid mistake |
---|
1762 | ! with dummy zero _FillValue |
---|
1763 | IF( td_var%d_fill == 0._dp )THEN |
---|
1764 | CALL var_chg_FillValue(td_var) |
---|
1765 | ENDIF |
---|
1766 | |
---|
1767 | ! use scale factor and offset |
---|
1768 | WHERE( td_var%d_value(:,:,:,:) /= td_var%d_fill ) |
---|
1769 | td_var%d_value(:,:,:,:) = & |
---|
1770 | & td_var%d_value(:,:,:,:)*td_var%d_scf + td_var%d_ofs |
---|
1771 | END WHERE |
---|
1772 | |
---|
1773 | ENDIF |
---|
1774 | ELSE |
---|
1775 | CALL logger_error( & |
---|
1776 | & "IOM CDF READ VAR VALUE: no variable "//TRIM(td_var%c_name)//& |
---|
1777 | & " in file structure "//TRIM(td_file%c_name)) |
---|
1778 | ENDIF |
---|
1779 | |
---|
1780 | END SUBROUTINE iom_cdf__read_var_value |
---|
1781 | !------------------------------------------------------------------- |
---|
1782 | !> @brief This subroutine write file structure in an opened netcdf file. |
---|
1783 | !> |
---|
1784 | !> @details |
---|
1785 | !> optionally, you could specify dimension order (default 'xyzt') |
---|
1786 | !> |
---|
1787 | !> @author J.Paul |
---|
1788 | !> @date November, 2013 - Initial Version |
---|
1789 | !> @date July, 2015 |
---|
1790 | !> - add dimension order option |
---|
1791 | ! |
---|
1792 | !> @param[inout] td_file file structure |
---|
1793 | !------------------------------------------------------------------- |
---|
1794 | SUBROUTINE iom_cdf_write_file(td_file, cd_dimorder) |
---|
1795 | IMPLICIT NONE |
---|
1796 | ! Argument |
---|
1797 | TYPE(TFILE) , INTENT(INOUT) :: td_file |
---|
1798 | CHARACTER(LEN=*), INTENT(IN ), OPTIONAL :: cd_dimorder |
---|
1799 | |
---|
1800 | ! local variable |
---|
1801 | INTEGER(i4), DIMENSION(:), ALLOCATABLE :: il_value |
---|
1802 | |
---|
1803 | CHARACTER(LEN=lc) :: cl_dimorder |
---|
1804 | |
---|
1805 | TYPE(TVAR) :: tl_var |
---|
1806 | |
---|
1807 | TYPE(TDIM), DIMENSION(ip_maxdim) :: tl_dim |
---|
1808 | |
---|
1809 | ! loop indices |
---|
1810 | INTEGER(i4) :: ji |
---|
1811 | INTEGER(i4) :: jj |
---|
1812 | INTEGER(i4) :: jvar |
---|
1813 | !---------------------------------------------------------------- |
---|
1814 | |
---|
1815 | cl_dimorder='xyzt' |
---|
1816 | IF( PRESENT(cd_dimorder) ) cl_dimorder=TRIM(cd_dimorder) |
---|
1817 | |
---|
1818 | ! check if file opened |
---|
1819 | IF( td_file%i_id == 0 )THEN |
---|
1820 | |
---|
1821 | CALL logger_error( & |
---|
1822 | & " IOM CDF WRITE FILE: no id associated to file "//TRIM(td_file%c_name)) |
---|
1823 | |
---|
1824 | ELSE |
---|
1825 | IF( td_file%l_wrt )THEN |
---|
1826 | |
---|
1827 | ! remove dummy variable |
---|
1828 | CALL file_del_var(td_file,'no0d') |
---|
1829 | CALL file_del_var(td_file,'no1d') |
---|
1830 | CALL file_del_var(td_file,'no2d') |
---|
1831 | CALL file_del_var(td_file,'no3d') |
---|
1832 | |
---|
1833 | DO ji = 1, td_file%i_nvar |
---|
1834 | CALL var_check_dim( td_file%t_var(ji) ) |
---|
1835 | ENDDO |
---|
1836 | |
---|
1837 | ! save usefull dimension |
---|
1838 | IF( ASSOCIATED(td_file%t_var) )THEN |
---|
1839 | tl_dim(:)=var_max_dim(td_file%t_var(:)) |
---|
1840 | |
---|
1841 | DO ji=1,ip_maxdim |
---|
1842 | IF( tl_dim(ji)%l_use ) CALL file_move_dim(td_file, tl_dim(ji)) |
---|
1843 | ENDDO |
---|
1844 | ! clean |
---|
1845 | CALL dim_clean(tl_dim(:)) |
---|
1846 | ENDIF |
---|
1847 | |
---|
1848 | ! change dimension order |
---|
1849 | IF( TRIM(cl_dimorder) /= 'xyzt' )THEN |
---|
1850 | CALL dim_reorder(td_file%t_dim(:),TRIM(cl_dimorder)) |
---|
1851 | DO jvar=1,td_file%i_nvar |
---|
1852 | CALL logger_debug("VAR REORDER: "//TRIM(td_file%t_var(jvar)%c_name)) |
---|
1853 | CALL var_reorder(td_file%t_var(jvar),TRIM(cl_dimorder)) |
---|
1854 | ENDDO |
---|
1855 | ENDIF |
---|
1856 | |
---|
1857 | ! write dimension in file |
---|
1858 | DO ji = 1, ip_maxdim |
---|
1859 | IF( td_file%t_dim(ji)%l_use )THEN |
---|
1860 | CALL iom_cdf__write_dim(td_file, td_file%t_dim(ji)) |
---|
1861 | |
---|
1862 | ! write dimension variable |
---|
1863 | ALLOCATE(il_value(td_file%t_dim(ji)%i_len)) |
---|
1864 | il_value(:)=(/(jj,jj=1,td_file%t_dim(ji)%i_len)/) |
---|
1865 | |
---|
1866 | tl_var=var_init( fct_upper(td_file%t_dim(ji)%c_sname), & |
---|
1867 | & il_value(:), & |
---|
1868 | & td_dim=td_file%t_dim(ji) ) |
---|
1869 | |
---|
1870 | DEALLOCATE(il_value) |
---|
1871 | |
---|
1872 | ! do not use FillValue for dimension variable |
---|
1873 | CALL var_del_att(tl_var, "_FillValue") |
---|
1874 | |
---|
1875 | CALL iom_cdf__write_var(td_file,tl_var) |
---|
1876 | ! clean |
---|
1877 | CALL var_clean(tl_var) |
---|
1878 | |
---|
1879 | ENDIF |
---|
1880 | ENDDO |
---|
1881 | |
---|
1882 | ! write global attibute in file |
---|
1883 | DO ji = 1, td_file%i_natt |
---|
1884 | CALL iom_cdf__write_att(td_file, NF90_GLOBAL, td_file%t_att(ji)) |
---|
1885 | ENDDO |
---|
1886 | |
---|
1887 | ! write variable in file |
---|
1888 | DO ji = 1, td_file%i_nvar |
---|
1889 | CALL iom_cdf__write_var(td_file, td_file%t_var(ji)) |
---|
1890 | ENDDO |
---|
1891 | |
---|
1892 | ELSE |
---|
1893 | |
---|
1894 | CALL logger_error( & |
---|
1895 | & "IOM CDF WRITE FILE: try to write in file "//TRIM(td_file%c_name)//& |
---|
1896 | & ", not opened in write mode") |
---|
1897 | |
---|
1898 | ENDIF |
---|
1899 | ENDIF |
---|
1900 | |
---|
1901 | END SUBROUTINE iom_cdf_write_file |
---|
1902 | !------------------------------------------------------------------- |
---|
1903 | !> @brief This subroutine write one dimension in an opened netcdf |
---|
1904 | !> file in write mode. |
---|
1905 | ! |
---|
1906 | !> @author J.Paul |
---|
1907 | !> @date November, 2013 - Initial Version |
---|
1908 | ! |
---|
1909 | !> @param[inout] td_file file structure |
---|
1910 | !> @param[inout] td_dim dimension structure |
---|
1911 | !------------------------------------------------------------------- |
---|
1912 | SUBROUTINE iom_cdf__write_dim(td_file, td_dim) |
---|
1913 | IMPLICIT NONE |
---|
1914 | ! Argument |
---|
1915 | TYPE(TFILE), INTENT(INOUT) :: td_file |
---|
1916 | TYPE(TDIM), INTENT(INOUT) :: td_dim |
---|
1917 | |
---|
1918 | ! local variable |
---|
1919 | INTEGER(i4) :: il_status |
---|
1920 | !---------------------------------------------------------------- |
---|
1921 | |
---|
1922 | IF( .NOT. td_file%l_def )THEN |
---|
1923 | |
---|
1924 | CALL logger_trace( & |
---|
1925 | & " IOM CDF WRITE FILE DIM: Enter define mode, file "//TRIM(td_file%c_name)) |
---|
1926 | |
---|
1927 | ! Enter define mode |
---|
1928 | il_status=NF90_REDEF(td_file%i_id) |
---|
1929 | CALL iom_cdf__check(il_status,"IOM CDF WRITE FILE DIM: ") |
---|
1930 | |
---|
1931 | td_file%l_def=.TRUE. |
---|
1932 | |
---|
1933 | ENDIF |
---|
1934 | |
---|
1935 | IF( td_dim%l_use )THEN |
---|
1936 | IF( td_dim%l_uld )THEN |
---|
1937 | ! write unlimited dimension |
---|
1938 | CALL logger_trace( & |
---|
1939 | & "IOM CDF WRITE FILE DIM: write unlimited dimension "//& |
---|
1940 | & TRIM(td_dim%c_name)//" in file "//TRIM(td_file%c_name)) |
---|
1941 | |
---|
1942 | il_status=NF90_DEF_DIM(td_file%i_id, fct_upper(td_dim%c_sname), & |
---|
1943 | & NF90_UNLIMITED, td_dim%i_id) |
---|
1944 | CALL iom_cdf__check(il_status,"IOM CDF WRITE FILE DIM: ") |
---|
1945 | |
---|
1946 | ELSE |
---|
1947 | ! write not unlimited dimension |
---|
1948 | CALL logger_debug( & |
---|
1949 | & "IOM CDF WRITE FILE DIM: write dimension "//TRIM(td_dim%c_name)//& |
---|
1950 | & " in file "//TRIM(td_file%c_name)) |
---|
1951 | |
---|
1952 | il_status=NF90_DEF_DIM(td_file%i_id, fct_upper(td_dim%c_sname), & |
---|
1953 | & td_dim%i_len, td_dim%i_id) |
---|
1954 | CALL iom_cdf__check(il_status,"IOM CDF WRITE FILE DIM: ") |
---|
1955 | |
---|
1956 | ENDIF |
---|
1957 | ENDIF |
---|
1958 | |
---|
1959 | END SUBROUTINE iom_cdf__write_dim |
---|
1960 | !------------------------------------------------------------------- |
---|
1961 | !> @brief This subroutine write a variable attribute in |
---|
1962 | !> an opened netcdf file. |
---|
1963 | ! |
---|
1964 | !> @author J.Paul |
---|
1965 | !> @date November, 2013 - Initial Version |
---|
1966 | ! |
---|
1967 | !> @param[inout] td_file file structure |
---|
1968 | !> @param[in] id_varid variable id. use NF90_GLOBAL to write |
---|
1969 | !> global attribute in a file |
---|
1970 | !> @param[in] td_att attribute structure |
---|
1971 | !------------------------------------------------------------------- |
---|
1972 | SUBROUTINE iom_cdf__write_att(td_file, id_varid, td_att) |
---|
1973 | IMPLICIT NONE |
---|
1974 | ! Argument |
---|
1975 | TYPE(TFILE), INTENT(INOUT) :: td_file |
---|
1976 | INTEGER(i4), INTENT(IN) :: id_varid |
---|
1977 | TYPE(TATT), INTENT(IN) :: td_att |
---|
1978 | |
---|
1979 | ! local variable |
---|
1980 | INTEGER(i4) :: il_status |
---|
1981 | !---------------------------------------------------------------- |
---|
1982 | |
---|
1983 | IF( .NOT. td_file%l_def )THEN |
---|
1984 | |
---|
1985 | CALL logger_trace( & |
---|
1986 | & "IOM CDF WRITE FILE ATT: Enter define mode, file "//TRIM(td_file%c_name)) |
---|
1987 | |
---|
1988 | ! Enter define mode |
---|
1989 | il_status=NF90_REDEF(td_file%i_id) |
---|
1990 | CALL iom_cdf__check(il_status,"IOM CDF WRITE FILE ATT: ") |
---|
1991 | |
---|
1992 | td_file%l_def=.TRUE. |
---|
1993 | |
---|
1994 | ENDIF |
---|
1995 | |
---|
1996 | !! put attribute value |
---|
1997 | CALL logger_trace( & |
---|
1998 | & "IOM CDF WRITE FILE ATT: write attribute "//TRIM(td_att%c_name)//& |
---|
1999 | & " of variable "//TRIM(fct_str(id_varid))//& |
---|
2000 | & " in file "//TRIM(td_file%c_name)) |
---|
2001 | SELECT CASE( td_att%i_type ) |
---|
2002 | |
---|
2003 | CASE(NF90_CHAR) |
---|
2004 | ! put the attribute |
---|
2005 | il_status = NF90_PUT_ATT(td_file%i_id, id_varid, & |
---|
2006 | & td_att%c_name, td_att%c_value ) |
---|
2007 | CALL iom_cdf__check(il_status,"IOM CDF WRITE FILE ATT: ") |
---|
2008 | |
---|
2009 | CASE(NF90_BYTE, NF90_SHORT, NF90_INT, NF90_FLOAT, NF90_DOUBLE) |
---|
2010 | ! put the attribute |
---|
2011 | il_status = NF90_PUT_ATT(td_file%i_id, id_varid, & |
---|
2012 | & td_att%c_name, td_att%d_value ) |
---|
2013 | CALL iom_cdf__check(il_status,"IOM CDF WRITE FILE ATT: ") |
---|
2014 | |
---|
2015 | END SELECT |
---|
2016 | |
---|
2017 | END SUBROUTINE iom_cdf__write_att |
---|
2018 | !------------------------------------------------------------------- |
---|
2019 | !> @brief This subroutine write a variable in an opened netcdf file. |
---|
2020 | ! |
---|
2021 | !> @author J.Paul |
---|
2022 | !> @date November, 2013 - Initial Version |
---|
2023 | !> @date September, 2015 |
---|
2024 | !> - do not force to use zero as FillValue for any meshmask variable |
---|
2025 | ! |
---|
2026 | !> @param[inout] td_file file structure |
---|
2027 | !> @param[inout] td_var variable structure |
---|
2028 | !------------------------------------------------------------------- |
---|
2029 | SUBROUTINE iom_cdf__write_var(td_file, td_var) |
---|
2030 | IMPLICIT NONE |
---|
2031 | ! Argument |
---|
2032 | TYPE(TFILE), INTENT(INOUT) :: td_file |
---|
2033 | TYPE(TVAR), INTENT(INOUT) :: td_var |
---|
2034 | |
---|
2035 | ! local variable |
---|
2036 | INTEGER(i4) :: il_status |
---|
2037 | LOGICAL :: ll_chg |
---|
2038 | ! loop indices |
---|
2039 | INTEGER(i4) :: ji |
---|
2040 | !---------------------------------------------------------------- |
---|
2041 | |
---|
2042 | IF( .NOT. td_file%l_def )THEN |
---|
2043 | |
---|
2044 | CALL logger_trace( & |
---|
2045 | & " IOM CDF WRITE VAR: Enter define mode, file "//& |
---|
2046 | & TRIM(td_file%c_name)) |
---|
2047 | |
---|
2048 | ! Enter define mode |
---|
2049 | il_status=NF90_REDEF(td_file%i_id) |
---|
2050 | CALL iom_cdf__check(il_status,"IOM CDF WRITE VAR: ") |
---|
2051 | |
---|
2052 | td_file%l_def=.TRUE. |
---|
2053 | |
---|
2054 | ENDIF |
---|
2055 | |
---|
2056 | ! check if file and variable dimension conform |
---|
2057 | IF( file_check_var_dim(td_file, td_var) )THEN |
---|
2058 | |
---|
2059 | ll_chg=.TRUE. |
---|
2060 | DO ji=1,ip_maxdim |
---|
2061 | IF( TRIM(fct_lower(cp_dimorder(ji:ji))) == & |
---|
2062 | & TRIM(fct_lower(td_var%c_name)) )THEN |
---|
2063 | ll_chg=.FALSE. |
---|
2064 | CALL logger_trace(TRIM(fct_lower(td_var%c_name))//' is var dimension') |
---|
2065 | EXIT |
---|
2066 | ENDIF |
---|
2067 | ENDDO |
---|
2068 | ! ugly patch until NEMO do not force to use 0. as FillValue |
---|
2069 | IF( ll_chg )THEN |
---|
2070 | ! not a dimension variable |
---|
2071 | ! change FillValue |
---|
2072 | SELECT CASE( TRIM(fct_lower(td_var%c_name)) ) |
---|
2073 | CASE DEFAULT |
---|
2074 | CALL var_chg_FillValue(td_var,0._dp) |
---|
2075 | CASE('nav_lon','nav_lat', & |
---|
2076 | & 'glamt','glamu','glamv','glamf', & |
---|
2077 | & 'gphit','gphiu','gphiv','gphif', & |
---|
2078 | & 'e1t','e1u','e1v','e1f', & |
---|
2079 | & 'e2t','e2u','e2v','e2f','ff', & |
---|
2080 | & 'gcost','gcosu','gcosv','gcosf', & |
---|
2081 | & 'gsint','gsinu','gsinv','gsinf', & |
---|
2082 | & 'mbathy','misf','isf_draft', & |
---|
2083 | & 'hbatt','hbatu','hbatv','hbatf', & |
---|
2084 | & 'gsigt','gsigu','gsigv','gsigf', & |
---|
2085 | & 'e3t_0','e3u_0','e3v_0','e3w_0', & |
---|
2086 | & 'e3f_0','gdepw_1d','gdept_1d', & |
---|
2087 | & 'e3tp','e3wp','gdepw_0','rx1', & |
---|
2088 | & 'gdept_0','gdepu','gdepv', & |
---|
2089 | & 'hdept','hdepw','e3w_1d','e3t_1d',& |
---|
2090 | & 'tmask','umask','vmask','fmask' ) |
---|
2091 | ! do not change for coordinates and meshmask variables |
---|
2092 | END SELECT |
---|
2093 | ENDIF |
---|
2094 | |
---|
2095 | ! define variable in file |
---|
2096 | td_var%i_id=iom_cdf__write_var_def(td_file, td_var) |
---|
2097 | |
---|
2098 | IF( td_file%l_def )THEN |
---|
2099 | |
---|
2100 | CALL logger_trace( & |
---|
2101 | & " IOM CDF WRITE VAR: Leave define mode, file "//& |
---|
2102 | & TRIM(td_file%c_name)) |
---|
2103 | |
---|
2104 | ! Leave define mode |
---|
2105 | il_status=NF90_ENDDEF(td_file%i_id) |
---|
2106 | CALL iom_cdf__check(il_status,"IOM CDF WRITE VAR: ") |
---|
2107 | |
---|
2108 | td_file%l_def=.FALSE. |
---|
2109 | |
---|
2110 | ENDIF |
---|
2111 | |
---|
2112 | IF( ASSOCIATED(td_var%d_value) )THEN |
---|
2113 | ! write variable value in file |
---|
2114 | CALL iom_cdf__write_var_value(td_file, td_var) |
---|
2115 | ENDIF |
---|
2116 | |
---|
2117 | ENDIF |
---|
2118 | |
---|
2119 | END SUBROUTINE iom_cdf__write_var |
---|
2120 | !------------------------------------------------------------------- |
---|
2121 | !> @brief This function define variable in an opened netcdf file. |
---|
2122 | ! |
---|
2123 | !> @author J.Paul |
---|
2124 | !> @date November, 2013 - Initial Version |
---|
2125 | ! |
---|
2126 | !> @param[in] td_file file structure |
---|
2127 | !> @param[in] td_var variable structure |
---|
2128 | !> @return variable id |
---|
2129 | !------------------------------------------------------------------- |
---|
2130 | INTEGER(i4) FUNCTION iom_cdf__write_var_def(td_file, td_var) |
---|
2131 | IMPLICIT NONE |
---|
2132 | ! Argument |
---|
2133 | TYPE(TFILE), INTENT(IN) :: td_file |
---|
2134 | TYPE(TVAR), INTENT(IN) :: td_var |
---|
2135 | |
---|
2136 | ! local variable |
---|
2137 | INTEGER(i4) :: il_status |
---|
2138 | INTEGER(i4) :: il_ind |
---|
2139 | INTEGER(i4), DIMENSION(ip_maxdim) :: il_dimid |
---|
2140 | |
---|
2141 | TYPE(TVAR) :: tl_var |
---|
2142 | |
---|
2143 | ! loop indices |
---|
2144 | INTEGER(i4) :: ji |
---|
2145 | INTEGER(i4) :: jj |
---|
2146 | !---------------------------------------------------------------- |
---|
2147 | |
---|
2148 | ! copy structure |
---|
2149 | tl_var=var_copy(td_var) |
---|
2150 | |
---|
2151 | ! forced to use float type |
---|
2152 | IF( tl_var%d_unf /= 1. .AND. tl_var%i_type==NF90_SHORT )THEN |
---|
2153 | tl_var%i_type=NF90_FLOAT |
---|
2154 | ENDIF |
---|
2155 | |
---|
2156 | IF( ALL( .NOT. tl_var%t_dim(:)%l_use ) )THEN |
---|
2157 | CALL logger_debug( & |
---|
2158 | & "IOM CDF WRITE VAR DEF scalar: define variable "//& |
---|
2159 | & TRIM(tl_var%c_name)//" in file "//TRIM(td_file%c_name)) |
---|
2160 | ! scalar value |
---|
2161 | il_status = NF90_DEF_VAR(td_file%i_id, TRIM(tl_var%c_name), & |
---|
2162 | & tl_var%i_type, varid=iom_cdf__write_var_def) |
---|
2163 | CALL iom_cdf__check(il_status,"IOM CDF WRITE VAR DEF: ") |
---|
2164 | ELSE |
---|
2165 | |
---|
2166 | ! check which dimension use |
---|
2167 | jj=0 |
---|
2168 | il_dimid(:)=0 |
---|
2169 | ! reorder dimension, so unused dimension won't be written |
---|
2170 | DO ji = 1, ip_maxdim |
---|
2171 | IF( tl_var%t_dim(ji)%l_use )THEN |
---|
2172 | jj=jj+1 |
---|
2173 | il_dimid(jj)=dim_get_id(td_file%t_dim(:),tl_var%t_dim(ji)%c_name) |
---|
2174 | ENDIF |
---|
2175 | ENDDO |
---|
2176 | |
---|
2177 | CALL logger_debug( & |
---|
2178 | & "IOM CDF WRITE VAR DEF: define dimension to be used for variable "//& |
---|
2179 | & TRIM(tl_var%c_name)//" in file "//TRIM(td_file%c_name)) |
---|
2180 | |
---|
2181 | DO ji=1,jj |
---|
2182 | CALL logger_debug("IOM CDF WRITE VAR DEF: dimid "//TRIM(fct_str(il_dimid(ji))) ) |
---|
2183 | ENDDO |
---|
2184 | |
---|
2185 | il_status = NF90_DEF_VAR(td_file%i_id, TRIM(tl_var%c_name), & |
---|
2186 | & tl_var%i_type, & |
---|
2187 | & il_dimid(1:jj), & |
---|
2188 | & varid=iom_cdf__write_var_def ) |
---|
2189 | CALL iom_cdf__check(il_status,"IOM CDF WRITE VAR DEF: ") |
---|
2190 | ENDIF |
---|
2191 | |
---|
2192 | ! remove unuseful attribute |
---|
2193 | il_ind=att_get_index( tl_var%t_att(:), "ew_overlap" ) |
---|
2194 | IF( il_ind /= 0 )THEN |
---|
2195 | IF( tl_var%t_att(il_ind)%d_value(1) == -1 )THEN |
---|
2196 | CALL var_del_att(tl_var, tl_var%t_att(il_ind)) |
---|
2197 | ENDIF |
---|
2198 | ENDIF |
---|
2199 | |
---|
2200 | DO ji = 1, tl_var%i_natt |
---|
2201 | CALL logger_debug( & |
---|
2202 | & " IOM CDF WRITE VAR DEF: put attribute "//TRIM(tl_var%t_att(ji)%c_name)//& |
---|
2203 | & " for variable "//TRIM(tl_var%c_name)//& |
---|
2204 | & " in file "//TRIM(td_file%c_name) ) |
---|
2205 | |
---|
2206 | ! forced FillValue to have same type than variable |
---|
2207 | IF( TRIM(tl_var%t_att(ji)%c_name) == '_FillValue' )THEN |
---|
2208 | tl_var%t_att(ji)%i_type=tl_var%i_type |
---|
2209 | ENDIF |
---|
2210 | |
---|
2211 | SELECT CASE(tl_var%t_att(ji)%i_type) |
---|
2212 | CASE(NF90_CHAR) |
---|
2213 | IF( TRIM(tl_var%t_att(ji)%c_value) /= '' )THEN |
---|
2214 | il_status = NF90_PUT_ATT(td_file%i_id, iom_cdf__write_var_def, & |
---|
2215 | & TRIM(tl_var%t_att(ji)%c_name), & |
---|
2216 | & TRIM(tl_var%t_att(ji)%c_value) ) |
---|
2217 | ENDIF |
---|
2218 | CASE(NF90_BYTE) |
---|
2219 | il_status = NF90_PUT_ATT(td_file%i_id, & |
---|
2220 | & iom_cdf__write_var_def, & |
---|
2221 | & TRIM(tl_var%t_att(ji)%c_name), & |
---|
2222 | & INT(tl_var%t_att(ji)%d_value(:),i1)) |
---|
2223 | CASE(NF90_SHORT) |
---|
2224 | il_status = NF90_PUT_ATT(td_file%i_id, & |
---|
2225 | & iom_cdf__write_var_def, & |
---|
2226 | & TRIM(tl_var%t_att(ji)%c_name), & |
---|
2227 | & INT(tl_var%t_att(ji)%d_value(:),i2)) |
---|
2228 | CASE(NF90_INT) |
---|
2229 | il_status = NF90_PUT_ATT(td_file%i_id, & |
---|
2230 | & iom_cdf__write_var_def, & |
---|
2231 | & TRIM(tl_var%t_att(ji)%c_name), & |
---|
2232 | & INT(tl_var%t_att(ji)%d_value(:),i4)) |
---|
2233 | CASE(NF90_FLOAT) |
---|
2234 | il_status = NF90_PUT_ATT(td_file%i_id, & |
---|
2235 | & iom_cdf__write_var_def, & |
---|
2236 | & TRIM(tl_var%t_att(ji)%c_name), & |
---|
2237 | & REAL(tl_var%t_att(ji)%d_value(:),sp)) |
---|
2238 | CASE(NF90_DOUBLE) |
---|
2239 | il_status = NF90_PUT_ATT(td_file%i_id, & |
---|
2240 | & iom_cdf__write_var_def, & |
---|
2241 | & TRIM(tl_var%t_att(ji)%c_name), & |
---|
2242 | & REAL(tl_var%t_att(ji)%d_value(:),dp)) |
---|
2243 | END SELECT |
---|
2244 | CALL iom_cdf__check(il_status,"IOM CDF WRITE VAR DEF: ") |
---|
2245 | |
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2246 | ENDDO |
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2247 | |
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2248 | END FUNCTION iom_cdf__write_var_def |
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2249 | !------------------------------------------------------------------- |
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2250 | !> @brief This subroutine put variable value in an opened netcdf file. |
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2251 | ! |
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2252 | !> @details |
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2253 | !> The variable is written in the type define in variable structure. |
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2254 | !> Only dimension used are printed, and fillValue in array are |
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2255 | !> replaced by default fill values defined in module netcdf for each type. |
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2256 | ! |
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2257 | !> @author J.Paul |
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2258 | !> @date November, 2013 - Initial Version |
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2259 | !> @date June, 2015 |
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2260 | !> - reuse scale factor and offset, before writing variable |
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2261 | ! |
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2262 | !> @param[in] td_file file structure |
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2263 | !> @param[in] td_var variable structure |
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2264 | !------------------------------------------------------------------- |
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2265 | SUBROUTINE iom_cdf__write_var_value(td_file, td_var) |
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2266 | IMPLICIT NONE |
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2267 | ! Argument |
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2268 | TYPE(TFILE), INTENT(IN) :: td_file |
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2269 | TYPE(TVAR), INTENT(IN) :: td_var |
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2270 | |
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2271 | ! local variable |
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2272 | INTEGER(i4) :: il_status |
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2273 | INTEGER(i4), DIMENSION(ip_maxdim) :: il_order |
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2274 | INTEGER(i4), DIMENSION(ip_maxdim) :: il_shape |
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2275 | REAL(dp), DIMENSION(:,:,:,:), ALLOCATABLE :: dl_value |
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2276 | |
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2277 | ! loop indices |
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2278 | INTEGER(i4) :: ji, jj |
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2279 | !---------------------------------------------------------------- |
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2280 | |
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2281 | ! check which dimension use |
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2282 | CALL logger_trace( & |
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2283 | & "IOM CDF WRITE VAR VALUE: get dimension to be used for variable "//& |
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2284 | & TRIM(td_var%c_name)//" in file "//TRIM(td_file%c_name)) |
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2285 | |
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2286 | ! use scale factor and offset |
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2287 | WHERE( td_var%d_value(:,:,:,:) /= td_var%d_fill ) |
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2288 | td_var%d_value(:,:,:,:) = & |
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2289 | & (td_var%d_value(:,:,:,:)-td_var%d_ofs)/td_var%d_scf |
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2290 | END WHERE |
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2291 | |
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2292 | jj=0 |
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2293 | DO ji = 1, ip_maxdim |
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2294 | IF( td_var%t_dim(ji)%l_use )THEN |
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2295 | jj=jj+1 |
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2296 | il_order(jj)=ji |
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2297 | il_shape(jj)=td_var%t_dim(ji)%i_len |
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2298 | ENDIF |
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2299 | ENDDO |
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2300 | ! dimension not use |
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2301 | DO ji = 1, ip_maxdim |
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2302 | IF( .NOT. td_var%t_dim(ji)%l_use )THEN |
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2303 | jj=jj+1 |
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2304 | il_order(jj)=ji |
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2305 | il_shape(jj)=td_var%t_dim(ji)%i_len |
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2306 | ENDIF |
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2307 | ENDDO |
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2308 | |
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2309 | ALLOCATE( dl_value( il_shape(1),il_shape(2),il_shape(3),il_shape(4) ) ) |
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2310 | |
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2311 | ! reshape array, so unused dimension won't be written |
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2312 | dl_value(:,:,:,:)=RESHAPE(source=td_var%d_value(:,:,:,:),& |
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2313 | & SHAPE = il_shape(:), & |
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2314 | & ORDER = il_order(:)) |
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2315 | |
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2316 | ! put value |
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2317 | CALL logger_debug( & |
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2318 | & "IOM CDF WRITE VAR VALUE: put "//TRIM(td_var%c_name)//" value "//& |
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2319 | & "in file "//TRIM(td_file%c_name)) |
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2320 | |
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2321 | il_status = NF90_PUT_VAR( td_file%i_id, td_var%i_id, dl_value(:,:,:,:)) |
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2322 | CALL iom_cdf__check(il_status,"IOM CDF WRITE VAR VALUE ("//& |
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2323 | & TRIM(td_var%c_name)//") :" ) |
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2324 | |
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2325 | DEALLOCATE( dl_value ) |
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2326 | |
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2327 | END SUBROUTINE iom_cdf__write_var_value |
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2328 | END MODULE iom_cdf |
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