diff --git a/data/studies/Study001/study/export/My Study_2025-11-06_12-53-44.folder.zip b/data/studies/Study001/study/export/My Study_2025-11-06_12-53-44.folder.zip deleted file mode 100644 index a8cbe715c0..0000000000 Binary files a/data/studies/Study001/study/export/My Study_2025-11-06_12-53-44.folder.zip and /dev/null differ diff --git a/data/studies/Study001/study/export/My Study_2025-11-10_11-29-52.folder.zip b/data/studies/Study001/study/export/My Study_2025-11-10_11-29-52.folder.zip deleted file mode 100644 index 1c0009727d..0000000000 Binary files a/data/studies/Study001/study/export/My Study_2025-11-10_11-29-52.folder.zip and /dev/null differ diff --git a/data/studies/Study001/study/export/My Study_2025-11-10_11-43-15.folder.zip b/data/studies/Study001/study/export/My Study_2025-11-10_11-43-15.folder.zip deleted file mode 100644 index c342e6a7ef..0000000000 Binary files a/data/studies/Study001/study/export/My Study_2025-11-10_11-43-15.folder.zip and /dev/null differ diff --git a/data/studies/Study001/study/export/data_states.xml b/data/studies/Study001/study/export/data_states.xml deleted file mode 100644 index f4f8840ee2..0000000000 --- a/data/studies/Study001/study/export/data_states.xml +++ /dev/null @@ -1,14 +0,0 @@ - - - - - - - - true - true - false - First QC State - Second QC State - Third QC State - \ No newline at end of file diff --git a/data/studies/Study001/study/export/filebrowser_admin_config.xml b/data/studies/Study001/study/export/filebrowser_admin_config.xml deleted file mode 100644 index 4f8c0c7bfa..0000000000 --- a/data/studies/Study001/study/export/filebrowser_admin_config.xml +++ /dev/null @@ -1,6 +0,0 @@ - - - true - useDefault - false - \ No newline at end of file diff --git a/data/studies/Study001/study/export/folder.xml b/data/studies/Study001/study/export/folder.xml deleted file mode 100644 index ab9f2341d8..0000000000 --- a/data/studies/Study001/study/export/folder.xml +++ /dev/null @@ -1,40 +0,0 @@ - - - - - Core - - Wiki - StudyDesign - Specimen - Study - Issues - Search - FileContent - Assay - Experiment - Query - Pipeline - API - Announcements - Core - - - - - - - true - - - - - - - - - - - - - \ No newline at end of file diff --git a/data/studies/Study001/study/export/pages.xml b/data/studies/Study001/study/export/pages.xml deleted file mode 100644 index 792b2af4b0..0000000000 --- a/data/studies/Study001/study/export/pages.xml +++ /dev/null @@ -1,60 +0,0 @@ - - - - - - \ No newline at end of file diff --git a/data/studies/Study001/study/export/queries/Hidden.query.xml b/data/studies/Study001/study/export/queries/Hidden.query.xml deleted file mode 100644 index 103f65ddf5..0000000000 --- a/data/studies/Study001/study/export/queries/Hidden.query.xml +++ /dev/null @@ -1,11 +0,0 @@ - - \ No newline at end of file diff --git a/data/studies/Study001/study/export/queries/Hidden.sql b/data/studies/Study001/study/export/queries/Hidden.sql deleted file mode 100644 index 64662866c1..0000000000 --- a/data/studies/Study001/study/export/queries/Hidden.sql +++ /dev/null @@ -1,6 +0,0 @@ -SELECT APIKeys.CreatedBy, -APIKeys.Created, -APIKeys.Expiration, -APIKeys.LastUsed, -APIKeys.Description -FROM APIKeys diff --git a/data/studies/Study001/study/export/queries/Inherit & Hidden.query.xml b/data/studies/Study001/study/export/queries/Inherit & Hidden.query.xml deleted file mode 100644 index d1718bc0ba..0000000000 --- a/data/studies/Study001/study/export/queries/Inherit & Hidden.query.xml +++ /dev/null @@ -1,11 +0,0 @@ - - \ No newline at end of file diff --git a/data/studies/Study001/study/export/queries/Inherit & Hidden.sql b/data/studies/Study001/study/export/queries/Inherit & Hidden.sql deleted file mode 100644 index 64662866c1..0000000000 --- a/data/studies/Study001/study/export/queries/Inherit & Hidden.sql +++ /dev/null @@ -1,6 +0,0 @@ -SELECT APIKeys.CreatedBy, -APIKeys.Created, -APIKeys.Expiration, -APIKeys.LastUsed, -APIKeys.Description -FROM APIKeys diff --git a/data/studies/Study001/study/export/queries/Inherit.query.xml b/data/studies/Study001/study/export/queries/Inherit.query.xml deleted file mode 100644 index 754f927566..0000000000 --- a/data/studies/Study001/study/export/queries/Inherit.query.xml +++ /dev/null @@ -1,11 +0,0 @@ - - - - - - - -
- - - \ No newline at end of file diff --git a/data/studies/Study001/study/export/queries/Inherit.sql b/data/studies/Study001/study/export/queries/Inherit.sql deleted file mode 100644 index 64662866c1..0000000000 --- a/data/studies/Study001/study/export/queries/Inherit.sql +++ /dev/null @@ -1,6 +0,0 @@ -SELECT APIKeys.CreatedBy, -APIKeys.Created, -APIKeys.Expiration, -APIKeys.LastUsed, -APIKeys.Description -FROM APIKeys diff --git a/data/studies/Study001/study/export/queries/Normal.query.xml b/data/studies/Study001/study/export/queries/Normal.query.xml deleted file mode 100644 index 657e46e14b..0000000000 --- a/data/studies/Study001/study/export/queries/Normal.query.xml +++ /dev/null @@ -1,11 +0,0 @@ - - - - - - - -
- - - \ No newline at end of file diff --git a/data/studies/Study001/study/export/queries/Normal.sql b/data/studies/Study001/study/export/queries/Normal.sql deleted file mode 100644 index 64662866c1..0000000000 --- a/data/studies/Study001/study/export/queries/Normal.sql +++ /dev/null @@ -1,6 +0,0 @@ -SELECT APIKeys.CreatedBy, -APIKeys.Created, -APIKeys.Expiration, -APIKeys.LastUsed, -APIKeys.Description -FROM APIKeys diff --git a/data/studies/Study001/study/export/study/assaySchedule/assayspecimen.tsv b/data/studies/Study001/study/export/study/assaySchedule/assayspecimen.tsv deleted file mode 100644 index 44e055d5ea..0000000000 --- a/data/studies/Study001/study/export/study/assaySchedule/assayspecimen.tsv +++ /dev/null @@ -1 +0,0 @@ -RowId AssayName Description LocationId DataSet Source TubeType Lab SampleType SampleQuantity SampleUnits diff --git a/data/studies/Study001/study/export/study/assaySchedule/assayspecimenvisit.tsv b/data/studies/Study001/study/export/study/assaySchedule/assayspecimenvisit.tsv deleted file mode 100644 index 2280ed81f9..0000000000 --- a/data/studies/Study001/study/export/study/assaySchedule/assayspecimenvisit.tsv +++ /dev/null @@ -1 +0,0 @@ -RowId VisitId AssaySpecimenId Container Created CreatedBy Modified ModifiedBy visitId.sequenceNumMin diff --git a/data/studies/Study001/study/export/study/assaySchedule/studydesignassays.tsv b/data/studies/Study001/study/export/study/assaySchedule/studydesignassays.tsv deleted file mode 100644 index 64baf08c64..0000000000 --- a/data/studies/Study001/study/export/study/assaySchedule/studydesignassays.tsv +++ /dev/null @@ -1 +0,0 @@ -Name Label Description Inactive Type Platform Category TargetFunction LeadContributor Contact Summary Keywords TargetType TargetSubtype Editorial AlternateName Lab LabPI diff --git a/data/studies/Study001/study/export/study/assaySchedule/studydesignlabs.tsv b/data/studies/Study001/study/export/study/assaySchedule/studydesignlabs.tsv deleted file mode 100644 index c7e127cc24..0000000000 --- a/data/studies/Study001/study/export/study/assaySchedule/studydesignlabs.tsv +++ /dev/null @@ -1 +0,0 @@ -Name Label Inactive PI Description Summary Institution diff --git a/data/studies/Study001/study/export/study/assaySchedule/studydesignsampletypes.tsv b/data/studies/Study001/study/export/study/assaySchedule/studydesignsampletypes.tsv deleted file mode 100644 index 36af02138e..0000000000 --- a/data/studies/Study001/study/export/study/assaySchedule/studydesignsampletypes.tsv +++ /dev/null @@ -1 +0,0 @@ -Name PrimaryType ShortSampleCode Inactive diff --git a/data/studies/Study001/study/export/study/assaySchedule/studydesignunits.tsv b/data/studies/Study001/study/export/study/assaySchedule/studydesignunits.tsv deleted file mode 100644 index 46b4c2ec02..0000000000 --- a/data/studies/Study001/study/export/study/assaySchedule/studydesignunits.tsv +++ /dev/null @@ -1 +0,0 @@ -Name Label Inactive diff --git a/data/studies/Study001/study/export/study/cohorts.xml b/data/studies/Study001/study/export/study/cohorts.xml deleted file mode 100644 index 243701b269..0000000000 --- a/data/studies/Study001/study/export/study/cohorts.xml +++ /dev/null @@ -1,2 +0,0 @@ - - \ No newline at end of file diff --git a/data/studies/Study001/study/export/study/datasets/Manually.dataset b/data/studies/Study001/study/export/study/datasets/Manually.dataset deleted file mode 100644 index 8e59702888..0000000000 --- a/data/studies/Study001/study/export/study/datasets/Manually.dataset +++ /dev/null @@ -1,19 +0,0 @@ -# default group can be used to avoid repeating definitions for each dataset -# -# action=[REPLACE,APPEND,DELETE] (default:REPLACE) -# deleteAfterImport=[TRUE|FALSE] (default:FALSE) - -default.action=REPLACE -default.deleteAfterImport=FALSE - -# map a source tsv column (right side) to a property name or full propertyURI (left) -# predefined properties: ParticipantId, SiteId, VisitId, Created -default.property.ParticipantId=ptid -default.property.Created=dfcreate - -# use to map from filename->datasetid -# NOTE: if there are NO explicit import definitions, we will try to import all files matching pattern -# NOTE: if there are ANY explicit mapping, we will only import listed datasets - -default.filePattern=dataset(\\d*).tsv -default.importAllMatches=TRUE diff --git a/data/studies/Study001/study/export/study/datasets/Study.dataset b/data/studies/Study001/study/export/study/datasets/Study.dataset deleted file mode 100644 index 8e59702888..0000000000 --- a/data/studies/Study001/study/export/study/datasets/Study.dataset +++ /dev/null @@ -1,19 +0,0 @@ -# default group can be used to avoid repeating definitions for each dataset -# -# action=[REPLACE,APPEND,DELETE] (default:REPLACE) -# deleteAfterImport=[TRUE|FALSE] (default:FALSE) - -default.action=REPLACE -default.deleteAfterImport=FALSE - -# map a source tsv column (right side) to a property name or full propertyURI (left) -# predefined properties: ParticipantId, SiteId, VisitId, Created -default.property.ParticipantId=ptid -default.property.Created=dfcreate - -# use to map from filename->datasetid -# NOTE: if there are NO explicit import definitions, we will try to import all files matching pattern -# NOTE: if there are ANY explicit mapping, we will only import listed datasets - -default.filePattern=dataset(\\d*).tsv -default.importAllMatches=TRUE diff --git a/data/studies/Study001/study/export/study/datasets/dataset5001.tsv b/data/studies/Study001/study/export/study/datasets/dataset5001.tsv deleted file mode 100644 index 2096ce34f5..0000000000 --- a/data/studies/Study001/study/export/study/datasets/dataset5001.tsv +++ /dev/null @@ -1,2 +0,0 @@ -ParticipantId SequenceNum date QCStateLabel TestInt TestString TestDate TestDateTime Location -PTID123 1.0000 First QC State 999 ABC 2013-10-29 00:00:00.0 2013-10-28 01:23:00.0 diff --git a/data/studies/Study001/study/export/study/datasets/datasets_manifest.xml b/data/studies/Study001/study/export/study/datasets/datasets_manifest.xml deleted file mode 100644 index 13d5faf969..0000000000 --- a/data/studies/Study001/study/export/study/datasets/datasets_manifest.xml +++ /dev/null @@ -1,8 +0,0 @@ - - - - - - - - \ No newline at end of file diff --git a/data/studies/Study001/study/export/study/datasets/datasets_metadata.xml b/data/studies/Study001/study/export/study/datasets/datasets_metadata.xml deleted file mode 100644 index 5aa30dd5dd..0000000000 --- a/data/studies/Study001/study/export/study/datasets/datasets_metadata.xml +++ /dev/null @@ -1,93 +0,0 @@ - - - - Contains up to one row of TestDataset data for each Participant/Visit combination. - - - varchar - Participant ID - Subject identifier - http://cpas.labkey.com/Study#ParticipantId - false - /study-participant.view?participantId=${ParticipantId} - - ptid - participantid - - - study - Participant - ParticipantId - - 32 - - - double - Sequence Num - http://cpas.labkey.com/Study#SequenceNum - false - - visit - visitid - - - - timestamp - Date - http://cpas.labkey.com/Study#VisitDate - Date - - - integer - TestInt - http://www.w3.org/2001/XMLSchema#int - FIXED_EDITABLE - - - numberValidator - numberValidator - urn:lsid:labkey.com:PropertyValidator:range - ~eq=999 - TestInt must equals '999'. - - failOnMatch - false - - - - - - varchar - TestRequiredString - http://www.w3.org/2001/XMLSchema#string - true - FIXED_EDITABLE - 4000 - - - timestamp - TestDate - http://www.w3.org/2001/XMLSchema#dateTime - FIXED_EDITABLE - - - timestamp - TestDateTime - http://www.w3.org/2001/XMLSchema#dateTime - FIXED_EDITABLE - - - integer - Location - http://www.w3.org/2001/XMLSchema#int - - study - Location - RowId - - FIXED_EDITABLE - - - TestDataset -
- \ No newline at end of file diff --git a/data/studies/Study001/study/export/study/properties/objective.tsv b/data/studies/Study001/study/export/study/properties/objective.tsv deleted file mode 100644 index 4651df66af..0000000000 --- a/data/studies/Study001/study/export/study/properties/objective.tsv +++ /dev/null @@ -1 +0,0 @@ -RowId Label Type Description DescriptionRendererType diff --git a/data/studies/Study001/study/export/study/properties/personnel.tsv b/data/studies/Study001/study/export/study/properties/personnel.tsv deleted file mode 100644 index d4e4a9bfed..0000000000 --- a/data/studies/Study001/study/export/study/properties/personnel.tsv +++ /dev/null @@ -1 +0,0 @@ -RowId Label Role URL UserId userId.displayName diff --git a/data/studies/Study001/study/export/study/properties/study.tsv b/data/studies/Study001/study/export/study/properties/study.tsv deleted file mode 100644 index 742c786b73..0000000000 --- a/data/studies/Study001/study/export/study/properties/study.tsv +++ /dev/null @@ -1,3 +0,0 @@ -Label StartDate EndDate TimepointType SubjectNounSingular SubjectNounPlural SubjectColumnName Grant Investigator Species ParticipantAliasDatasetId ParticipantAliasProperty ParticipantAliasSourceProperty AssayPlan Description DescriptionRendererType DateBased LSID cust_string cust_integer cust_dateTime cust_double cust_multiline -Study Properties 2025-11-10 00:00:00.0 VISIT Participant Participants ParticipantId Grantland Dr. Strangelove Human study description TEXT_WITH_LINKS false urn:lsid:labkey.com:Study.Folder-68:68 custom string 2 2014-03-26 00:00:00.0 3.14 "custom multiline -custom multiline" diff --git a/data/studies/Study001/study/export/study/properties/study_metadata.xml b/data/studies/Study001/study/export/study/properties/study_metadata.xml deleted file mode 100644 index dcf1fc8313..0000000000 --- a/data/studies/Study001/study/export/study/properties/study_metadata.xml +++ /dev/null @@ -1,45 +0,0 @@ - - - - Contains one row per each study personnel - -
- - Contains one row per study, describing basic and extended study properties. - - - varchar - cust_string - http://www.w3.org/2001/XMLSchema#string - FIXED_EDITABLE - 4000 - - - integer - cust_integer - http://www.w3.org/2001/XMLSchema#int - FIXED_EDITABLE - - - timestamp - cust_dateTime - http://www.w3.org/2001/XMLSchema#dateTime - FIXED_EDITABLE - - - double - cust_double - http://www.w3.org/2001/XMLSchema#double - FIXED_EDITABLE - - - varchar - textarea - cust_multiline - http://www.w3.org/2001/XMLSchema#multiLine - FIXED_EDITABLE - 4000 - - -
- \ No newline at end of file diff --git a/data/studies/Study001/study/export/study/security_policy.xml b/data/studies/Study001/study/export/study/security_policy.xml deleted file mode 100644 index a6dd7ec149..0000000000 --- a/data/studies/Study001/study/export/study/security_policy.xml +++ /dev/null @@ -1,9 +0,0 @@ - - - BASIC_READ - - - - - - \ No newline at end of file diff --git a/data/studies/Study001/study/export/study/specimens/Manually.specimens b/data/studies/Study001/study/export/study/specimens/Manually.specimens deleted file mode 100644 index f9e67a486c..0000000000 Binary files a/data/studies/Study001/study/export/study/specimens/Manually.specimens and /dev/null differ diff --git a/data/studies/Study001/study/export/study/specimens/Study.specimens b/data/studies/Study001/study/export/study/specimens/Study.specimens deleted file mode 100644 index 7d8e67180b..0000000000 Binary files a/data/studies/Study001/study/export/study/specimens/Study.specimens and /dev/null differ diff --git a/data/studies/Study001/study/export/study/specimens/specimen_settings.xml b/data/studies/Study001/study/export/study/specimens/specimen_settings.xml deleted file mode 100644 index 17c3f9e5fe..0000000000 --- a/data/studies/Study001/study/export/study/specimens/specimen_settings.xml +++ /dev/null @@ -1,60 +0,0 @@ - - - - - Primary Type - Derivative Type - Additive Type - - - Derivative Type - Additive Type - - - - - - - - - - - - - - -
- Assay Plan-1 - Please enter a description of or reference to the assay plan(s) that will be used for the requested specimens. -
-
- Shipping Information - Please enter your shipping address along with any special instructions. -
-
- Comments - Please enter any additional information regarding your request. -
-
- Request #4 - Request help text #4 -
-
- Request #5 - Request help text #5 -
- - - specimen-test@simpleexport.test - specimen-test@simpleexport.test - Specimen Request Notification - None - ExcelAttachment - - - - - - - - \ No newline at end of file diff --git a/data/studies/Study001/study/export/study/specimens/specimens_metadata.xml b/data/studies/Study001/study/export/study/specimens/specimens_metadata.xml deleted file mode 100644 index a33ef28389..0000000000 --- a/data/studies/Study001/study/export/study/specimens/specimens_metadata.xml +++ /dev/null @@ -1,753 +0,0 @@ - - - - - - bigint - Row Id - false - false - false - - - varchar - Specimen Hash - A string value that uniquely identifies the specimen/draw-level properties of the specimen, including subject, visit, and specimen type. - 256 - - - varchar - PTID - The ID of the subject providing each specimen. - 32 - - - varchar - Visit Description - A description of the visit type for each specimen. For example, "visit", "day", or "week". - 10 - - - double - Visit Value - The visit value (sequence num) of specimen collection. - 0.#### - - - varchar - Volume Units - The units of volume for each specimen. - 20 - - - integer - Primary Type Id - The ID of the primary type of each specimen. - - - integer - Additive Type Id - The ID of the additive type of each specimen. - - - integer - Derivative Type Id - The ID of the derivative type of each specimen. - - - integer - Derivative Type Id2 - The ID of the second derivative type of each specimen. - - - varchar - Subadditive Derivative - The sub-additive/derivative type of each specimen. - 50 - - - timestamp - Draw Timestamp - The timestamp of specimen collection. - DateTime - - - timestamp - Draw Date - The date of specimen collection. - Date - - - time - Draw Time - The time of specimen collection. - Time - - - timestamp - Sal Receipt Date - The timestamp of specimen receipt at the site-affiliated laboratory. - - - varchar - Class Id - The class, network, or study associated with each specimen. - 20 - - - varchar - Protocol Number - The protocol associated with each specimen. - 20 - - - integer - Originating Location Id - The ID of the originating (collection) location of each specimen. - - - double - Total Volume - The total volume of all vials from each specimen. - - - double - Available Volume - The total volume of all vials from each specimen that are currently available for request. - - - integer - Vial Count - The total number of vials from each specimen. - - - integer - Locked In Request Count - The number of vials from each specimen that are currently locked in requests. - - - integer - At Repository Count - The number of vials from each specimen that are currently at a repository. - - - integer - Available Count - The number of vials from each specimen that are currently available for request. - - - integer - Expected Available Count - The total volume of all vials from each specimen that are expected to become available for request. This includes vials currently available as well as those not available but not yet requested. - - - varchar - Participant Sequence Num - A string value uniquely identifying the subject/visit combination for each specimen row. - 200 - - - integer - Processing Location - The ID of the processing location of each vial. - - - varchar - First Processed By Initials - The common FirstProcessedByInitials value for all vials in this specimen. Will be null if all vials do not share a common FirstProcessedByInitials values. - 32 - - -
- - - - bigint - Row Id - The unique ID of each event. - false - false - false - - - bigint - Vial Id - The ID of the vial. - false - - - integer - Lab Id - The ID of the location associated with each event. - - - varchar - Unique Specimen Id - The unique specimen ID provided by the LIMS at the storage location. - 50 - - - integer - Parent Specimen Id - The parent specimen ID provided by the LIMS at the storage location. - - - integer - Stored - The location-specific storage code. - - - integer - Storage Flag - The location-specific storage flag. - - - timestamp - Storage Date - The date/time of vial storage. - - - integer - Ship Flag - The location-specific shipment flag. - - - integer - Ship Batch Number - The shipment batch number, if the vial/specimen has left this location. - - - timestamp - Ship Date - The date/time of shipment, if the vial has left this location. - - - integer - Imported Batch Number - The ID of the import batch that included this vial/specimen. - - - timestamp - Lab Receipt Date - The date/time of vial receipt. - - - varchar - textarea - Comments - Location-specific comments associated with each vial. - 500 - - - varchar - Specimen Condition - The condition code for the vial. - 30 - - - integer - Sample Number - A text identifier of the collection/draw. This value may vary by location/LIMS, so it should not be used to group events cross-location. - - - varchar - Xsample Origin - The LIMS-provided sample origin. - 50 - - - varchar - External Location - The LIMS-provided external location. - 50 - - - timestamp - Update Timestamp - The date/time of last record modification in the external LIMS. - DateTime - - - varchar - Other Specimen Id - Alternate specimen ID, if needed. - 50 - - - varchar - Expected Time Unit - The LIMS-provided expected time units. - 15 - - - double - Expected Time Value - The LIMS-provided expected time value. - - - integer - Group Protocol - The group/protocol of each vial. - - - varchar - Record Source - The LIMS system responsible for each event. Generally used when multiple LIMS (LDMS and Labware, for example) are providing loading data into a single repository. - 20 - - - varchar - Specimen Number - A text identifier of the collection/draw. This value may vary by location/LIMS, so it should not be used to group events cross-location. - 50 - - - bigint - External Id - The external identifier for each event, if imported from an external data source. - - - varchar - Shipped From Lab - The date/time each vial was shipped from the lab. - 32 - - - varchar - Shipped To Lab - The date/time each vial was shipped to the lab. - 32 - - - varchar - PTID - The ID of the subject providing each specimen. - 32 - - - timestamp - Draw Timestamp - The timestamp of specimen collection. - DateTime - - - timestamp - Sal Receipt Date - The timestamp of specimen receipt at the site-affiliated laboratory. - - - varchar - Class Id - The class, network, or study associated with each specimen. - 20 - - - double - Visit Value - The visit value (sequence num) of specimen collection. - - - varchar - Protocol Number - The protocol associated with each specimen. - 20 - - - varchar - Visit Description - A description of the visit type for each specimen. For example, "visit", "day", or "week". - 10 - - - double - Volume - The volume of each vial. - - - varchar - Volume Units - The units of volume for each specimen. - 20 - - - varchar - Subadditive Derivative - The sub-additive/derivative type of each specimen. - 50 - - - integer - Primary Type Id - The ID of the primary type of each specimen. - - - integer - Additive Type Id - The ID of the additive type of each specimen. - - - integer - Derivative Type Id - The ID of the derivative type of each specimen. - - - integer - Derivative Type Id2 - The ID of the second derivative type of each specimen. - - - integer - Originating Location Id - The ID of the originating (collection) location of each specimen. - - - timestamp - Frozen Time - The duration of the freezing process. - H:mm:ss - - - timestamp - Processing Time - The duration of the processing process. - H:mm:ss - - - double - Primary Volume - The primary/original volume of each vial. This value is passed through from the specimen data feed, so the provided data determines whether this is primary volume per vial or primary volume per collection/draw. - - - varchar - Primary Volume Units - The units of the primary volume value of each vial. For example, cells or milliliters. - 20 - - - varchar - Processed By Initials - The initials of the vial's processor. - 32 - - - timestamp - Processing Date - The date/time of vial processing. - - - double - Total Cell Count - The total cell count for each vial. - 0.#### - - - varchar - textarea - Quality Comments - 500 - - - varchar - Input Hash - 16 - - - boolean - Obsolete - Indicates the event precedes the last edit of the vial. - false - - - varchar - Tube Type - The type of vial. - 64 - - - varchar - Deviation Code1 - Site-defined deviation code. - http://www.w3.org/2001/XMLSchema#string - - deviation_code1 - - 50 - - - varchar - Deviation Code2 - Site-defined deviation code. - http://www.w3.org/2001/XMLSchema#string - - deviation_code2 - - 50 - - - varchar - Deviation Code3 - Site-defined deviation code. - http://www.w3.org/2001/XMLSchema#string - - deviation_code3 - - 50 - - - float - Concentration - Processing concentration value. - http://www.w3.org/2001/XMLSchema#float - - - float - Integrity - Processing integrity value. - http://www.w3.org/2001/XMLSchema#float - - - float - Ratio - Processing ratio value. - http://www.w3.org/2001/XMLSchema#float - - - float - Yield - Processing yield value. - http://www.w3.org/2001/XMLSchema#float - - - varchar - Freezer - The ID of the storage freezer. - http://www.w3.org/2001/XMLSchema#string - 200 - - - varchar - Fr Container - The container location within the storage freezer. - http://www.w3.org/2001/XMLSchema#string - 200 - - - varchar - Fr Position - The storage position within the storage freezer. - http://www.w3.org/2001/XMLSchema#string - 200 - - - varchar - Fr Level1 - The level 1 location within the storage freezer. - http://www.w3.org/2001/XMLSchema#string - 200 - - - varchar - Fr Level2 - The level 2 location within the storage freezer. - http://www.w3.org/2001/XMLSchema#string - 200 - - -
- - - - bigint - Row Id - false - - - varchar - Global Unique Id - The global unique ID of each vial. Assumed to be globally unique within a study, but duplicates can exist cross-study. - false - 50 - - - double - Volume - The volume of each vial. - #,###.0# - - - varchar - Specimen Hash - A string value that uniquely identifies the specimen/draw-level properties of the vial, including subject, visit, and specimen type. - 256 - - - boolean - Requestable - Whether or not each vial should be requestable. If null, requestability will be determined by whether the vial is at a repository or locked in another request. If true/false, repository calculation is overridden, and only locked status will be considered. - - - integer - Current Location - The ID of the current location of the vial. Current location is determined by the most recent event for each vial, and may be null if the most recent specimen event indicates that the vial has been shipped. - - - boolean - At Repository - Whether each vial is currently at a repository. - false - - - boolean - Locked In Request - Whether each vial is currently locked in a specimen request. - false - - - boolean - Available - Whether each vial is currently available for request. Calculated from the Requestable, AtRepository, and LockedInRequest columns. - false - - - integer - Processing Location - The ID of the processing location of each vial. - - - bigint - Specimen Id - The ID of the primary specimen associated with each vial. - false - - - double - Primary Volume - The primary/original volume of each vial. This value is passed through from the specimen data feed, so the provided data determines whether this is primary volume per vial or primary volume per collection/draw. - - - varchar - Primary Volume Units - The units of the primary volume value of each vial. For example, cells or milliliters. - 20 - - - varchar - First Processed By Initials - The value of the ProcessedByInitials from the first recorded event for this vial. - 32 - - - varchar - Availability Reason - Text explanation for why each vial is or is not available for request. May be null if the vial is available and no special circumstances apply. - 256 - - - double - Total Cell Count - The total cell count for each vial. - 0.#### - - - varchar - textarea - Latest Comments - Additional comments on processing quality from latest event. - 500 - - - varchar - textarea - Latest Quality Comments - Additional comments on processing quality from latest event. - 500 - - - varchar - Tube Type - The type of vial. - 64 - - - varchar - Latest Deviation Code1 - Site-defined deviation code from latest event. - http://www.w3.org/2001/XMLSchema#string - 50 - - - varchar - Latest Deviation Code2 - Site-defined deviation code from latest event. - http://www.w3.org/2001/XMLSchema#string - 50 - - - varchar - Latest Deviation Code3 - Site-defined deviation code from latest event. - http://www.w3.org/2001/XMLSchema#string - 50 - - - float - Latest Concentration - Processing concentration value from latest event. - http://www.w3.org/2001/XMLSchema#float - - - float - Latest Integrity - Processing integrity value from latest event. - http://www.w3.org/2001/XMLSchema#float - - - float - Latest Ratio - Processing ratio value from latest event. - http://www.w3.org/2001/XMLSchema#float - - - float - Latest Yield - Processing yield value from latest event. - http://www.w3.org/2001/XMLSchema#float - - - varchar - Freezer - The ID of the storage freezer. - http://www.w3.org/2001/XMLSchema#string - 200 - - - varchar - Fr Container - The container location within the storage freezer. - http://www.w3.org/2001/XMLSchema#string - 200 - - - varchar - Fr Position - The storage position within the storage freezer. - http://www.w3.org/2001/XMLSchema#string - 200 - - - varchar - Fr Level1 - The level 1 location within the storage freezer. - http://www.w3.org/2001/XMLSchema#string - 200 - - - varchar - Fr Level2 - The level 2 location within the storage freezer. - http://www.w3.org/2001/XMLSchema#string - 200 - - -
- \ No newline at end of file diff --git a/data/studies/Study001/study/export/study/study.xml b/data/studies/Study001/study/export/study/study.xml deleted file mode 100644 index d28b2ff127..0000000000 --- a/data/studies/Study001/study/export/study/study.xml +++ /dev/null @@ -1,19 +0,0 @@ - - - - - - - - - - - - - - - - study description - - - \ No newline at end of file diff --git a/data/studies/Study001/study/export/study/treatmentData/doseandroute.tsv b/data/studies/Study001/study/export/study/treatmentData/doseandroute.tsv deleted file mode 100644 index 7519f3b7b9..0000000000 --- a/data/studies/Study001/study/export/study/treatmentData/doseandroute.tsv +++ /dev/null @@ -1 +0,0 @@ -RowId Dose Route ProductId Label diff --git a/data/studies/Study001/study/export/study/treatmentData/product.tsv b/data/studies/Study001/study/export/study/treatmentData/product.tsv deleted file mode 100644 index 06686bc056..0000000000 --- a/data/studies/Study001/study/export/study/treatmentData/product.tsv +++ /dev/null @@ -1 +0,0 @@ -RowId Label Role Type diff --git a/data/studies/Study001/study/export/study/treatmentData/productantigen.tsv b/data/studies/Study001/study/export/study/treatmentData/productantigen.tsv deleted file mode 100644 index 6414cb686d..0000000000 --- a/data/studies/Study001/study/export/study/treatmentData/productantigen.tsv +++ /dev/null @@ -1 +0,0 @@ -RowId ProductId Gene SubType GenBankId Sequence diff --git a/data/studies/Study001/study/export/study/treatmentData/studydesignchallengetypes.tsv b/data/studies/Study001/study/export/study/treatmentData/studydesignchallengetypes.tsv deleted file mode 100644 index 46b4c2ec02..0000000000 --- a/data/studies/Study001/study/export/study/treatmentData/studydesignchallengetypes.tsv +++ /dev/null @@ -1 +0,0 @@ -Name Label Inactive diff --git a/data/studies/Study001/study/export/study/treatmentData/studydesigngenes.tsv b/data/studies/Study001/study/export/study/treatmentData/studydesigngenes.tsv deleted file mode 100644 index 46b4c2ec02..0000000000 --- a/data/studies/Study001/study/export/study/treatmentData/studydesigngenes.tsv +++ /dev/null @@ -1 +0,0 @@ -Name Label Inactive diff --git a/data/studies/Study001/study/export/study/treatmentData/studydesignimmunogentypes.tsv b/data/studies/Study001/study/export/study/treatmentData/studydesignimmunogentypes.tsv deleted file mode 100644 index 46b4c2ec02..0000000000 --- a/data/studies/Study001/study/export/study/treatmentData/studydesignimmunogentypes.tsv +++ /dev/null @@ -1 +0,0 @@ -Name Label Inactive diff --git a/data/studies/Study001/study/export/study/treatmentData/studydesignroutes.tsv b/data/studies/Study001/study/export/study/treatmentData/studydesignroutes.tsv deleted file mode 100644 index 46b4c2ec02..0000000000 --- a/data/studies/Study001/study/export/study/treatmentData/studydesignroutes.tsv +++ /dev/null @@ -1 +0,0 @@ -Name Label Inactive diff --git a/data/studies/Study001/study/export/study/treatmentData/studydesignsubtypes.tsv b/data/studies/Study001/study/export/study/treatmentData/studydesignsubtypes.tsv deleted file mode 100644 index 46b4c2ec02..0000000000 --- a/data/studies/Study001/study/export/study/treatmentData/studydesignsubtypes.tsv +++ /dev/null @@ -1 +0,0 @@ -Name Label Inactive diff --git a/data/studies/Study001/study/export/study/treatmentData/treatment.tsv b/data/studies/Study001/study/export/study/treatmentData/treatment.tsv deleted file mode 100644 index 0fd7180ac1..0000000000 --- a/data/studies/Study001/study/export/study/treatmentData/treatment.tsv +++ /dev/null @@ -1 +0,0 @@ -RowId Label Description DescriptionRendererType diff --git a/data/studies/Study001/study/export/study/treatmentData/treatment_metadata.xml b/data/studies/Study001/study/export/study/treatmentData/treatment_metadata.xml deleted file mode 100644 index 6e395992ac..0000000000 --- a/data/studies/Study001/study/export/study/treatmentData/treatment_metadata.xml +++ /dev/null @@ -1,19 +0,0 @@ - - - - Contains one row per study treatment - -
- - Contains one row per study product - -
- - Contains one row per study treatment product - -
- - Contains one row per study product antigen - -
- \ No newline at end of file diff --git a/data/studies/Study001/study/export/study/treatmentData/treatmentproductmap.tsv b/data/studies/Study001/study/export/study/treatmentData/treatmentproductmap.tsv deleted file mode 100644 index c9ef022b5e..0000000000 --- a/data/studies/Study001/study/export/study/treatmentData/treatmentproductmap.tsv +++ /dev/null @@ -1 +0,0 @@ -RowId TreatmentId ProductId Dose Route diff --git a/data/studies/Study001/study/export/study/treatmentData/treatmentvisitmap.tsv b/data/studies/Study001/study/export/study/treatmentData/treatmentvisitmap.tsv deleted file mode 100644 index d5a9b3f417..0000000000 --- a/data/studies/Study001/study/export/study/treatmentData/treatmentvisitmap.tsv +++ /dev/null @@ -1 +0,0 @@ -CohortId TreatmentId VisitId Container cohortId.label visitId.sequenceNumMin diff --git a/data/studies/Study001/study/export/study/views/participant.html b/data/studies/Study001/study/export/study/views/participant.html deleted file mode 100644 index 2373cfddfa..0000000000 --- a/data/studies/Study001/study/export/study/views/participant.html +++ /dev/null @@ -1 +0,0 @@ -This is my custom participant view \ No newline at end of file diff --git a/data/studies/Study001/study/export/study/views/settings.xml b/data/studies/Study001/study/export/study/views/settings.xml deleted file mode 100644 index 8dd463225d..0000000000 --- a/data/studies/Study001/study/export/study/views/settings.xml +++ /dev/null @@ -1,4 +0,0 @@ - - - - \ No newline at end of file diff --git a/data/studies/Study001/study/export/study/visit_map.xml b/data/studies/Study001/study/export/study/visit_map.xml deleted file mode 100644 index 3c6e8bc99e..0000000000 --- a/data/studies/Study001/study/export/study/visit_map.xml +++ /dev/null @@ -1,4 +0,0 @@ - - - - \ No newline at end of file diff --git a/data/studies/Study001/study/export/wikis/wikis.xml b/data/studies/Study001/study/export/wikis/wikis.xml deleted file mode 100644 index ec9f9190df..0000000000 --- a/data/studies/Study001/study/export/wikis/wikis.xml +++ /dev/null @@ -1,2 +0,0 @@ - - \ No newline at end of file