From 754e8f214b940e05298cb360ed829f5c685d55a5 Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Thu, 25 Jul 2024 11:07:33 -0500
Subject: Rename module: qc_app --> uploader
---
.../rqtl2/create-geno-dataset-success.html | 55 ----
.../rqtl2/create-probe-dataset-success.html | 59 -----
.../rqtl2/create-probe-study-success.html | 49 ----
qc_app/templates/rqtl2/create-tissue-success.html | 106 --------
qc_app/templates/rqtl2/index.html | 36 ---
qc_app/templates/rqtl2/no-such-job.html | 13 -
qc_app/templates/rqtl2/rqtl2-job-error.html | 39 ---
qc_app/templates/rqtl2/rqtl2-job-results.html | 24 --
qc_app/templates/rqtl2/rqtl2-job-status.html | 20 --
qc_app/templates/rqtl2/rqtl2-qc-job-error.html | 120 ---------
qc_app/templates/rqtl2/rqtl2-qc-job-results.html | 66 -----
qc_app/templates/rqtl2/rqtl2-qc-job-status.html | 41 ---
qc_app/templates/rqtl2/rqtl2-qc-job-success.html | 37 ---
qc_app/templates/rqtl2/select-geno-dataset.html | 144 -----------
qc_app/templates/rqtl2/select-population.html | 136 ----------
.../templates/rqtl2/select-probeset-dataset.html | 191 --------------
.../templates/rqtl2/select-probeset-study-id.html | 143 -----------
qc_app/templates/rqtl2/select-tissue.html | 115 ---------
qc_app/templates/rqtl2/summary-info.html | 65 -----
.../rqtl2/upload-rqtl2-bundle-step-01.html | 276 ---------------------
.../rqtl2/upload-rqtl2-bundle-step-02.html | 33 ---
21 files changed, 1768 deletions(-)
delete mode 100644 qc_app/templates/rqtl2/create-geno-dataset-success.html
delete mode 100644 qc_app/templates/rqtl2/create-probe-dataset-success.html
delete mode 100644 qc_app/templates/rqtl2/create-probe-study-success.html
delete mode 100644 qc_app/templates/rqtl2/create-tissue-success.html
delete mode 100644 qc_app/templates/rqtl2/index.html
delete mode 100644 qc_app/templates/rqtl2/no-such-job.html
delete mode 100644 qc_app/templates/rqtl2/rqtl2-job-error.html
delete mode 100644 qc_app/templates/rqtl2/rqtl2-job-results.html
delete mode 100644 qc_app/templates/rqtl2/rqtl2-job-status.html
delete mode 100644 qc_app/templates/rqtl2/rqtl2-qc-job-error.html
delete mode 100644 qc_app/templates/rqtl2/rqtl2-qc-job-results.html
delete mode 100644 qc_app/templates/rqtl2/rqtl2-qc-job-status.html
delete mode 100644 qc_app/templates/rqtl2/rqtl2-qc-job-success.html
delete mode 100644 qc_app/templates/rqtl2/select-geno-dataset.html
delete mode 100644 qc_app/templates/rqtl2/select-population.html
delete mode 100644 qc_app/templates/rqtl2/select-probeset-dataset.html
delete mode 100644 qc_app/templates/rqtl2/select-probeset-study-id.html
delete mode 100644 qc_app/templates/rqtl2/select-tissue.html
delete mode 100644 qc_app/templates/rqtl2/summary-info.html
delete mode 100644 qc_app/templates/rqtl2/upload-rqtl2-bundle-step-01.html
delete mode 100644 qc_app/templates/rqtl2/upload-rqtl2-bundle-step-02.html
(limited to 'qc_app/templates/rqtl2')
diff --git a/qc_app/templates/rqtl2/create-geno-dataset-success.html b/qc_app/templates/rqtl2/create-geno-dataset-success.html
deleted file mode 100644
index 1b50221..0000000
--- a/qc_app/templates/rqtl2/create-geno-dataset-success.html
+++ /dev/null
@@ -1,55 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages%}
-
-{%block title%}Upload R/qtl2 Bundle{%endblock%}
-
-{%block contents%}
-
Select Genotypes Dataset
-
-
-
You successfully created the genotype dataset with the following
- information.
-
- ID
- {{geno_dataset.id}}
-
- Name
- {{geno_dataset.name}}
-
- Full Name
- {{geno_dataset.fname}}
-
- Short Name
- {{geno_dataset.sname}}
-
- Created On
- {{geno_dataset.today}}
-
- Public?
- {%if geno_dataset.public == 0%}No{%else%}Yes{%endif%}
-
-
-
-
-
-
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/create-probe-dataset-success.html b/qc_app/templates/rqtl2/create-probe-dataset-success.html
deleted file mode 100644
index 790d174..0000000
--- a/qc_app/templates/rqtl2/create-probe-dataset-success.html
+++ /dev/null
@@ -1,59 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages%}
-
-{%block title%}Upload R/qtl2 Bundle{%endblock%}
-
-{%block contents%}
-Create ProbeSet Dataset
-
-
-
You successfully created the ProbeSet dataset with the following
- information.
-
- Averaging Method
- {{avgmethod.Name}}
-
- ID
- {{dataset.datasetid}}
-
- Name
- {{dataset.name2}}
-
- Full Name
- {{dataset.fname}}
-
- Short Name
- {{dataset.sname}}
-
- Created On
- {{dataset.today}}
-
- DataScale
- {{dataset.datascale}}
-
-
-
-
-
-
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/create-probe-study-success.html b/qc_app/templates/rqtl2/create-probe-study-success.html
deleted file mode 100644
index d0ee508..0000000
--- a/qc_app/templates/rqtl2/create-probe-study-success.html
+++ /dev/null
@@ -1,49 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages%}
-
-{%block title%}Upload R/qtl2 Bundle{%endblock%}
-
-{%block contents%}
-Create ProbeSet Study
-
-
-
You successfully created the ProbeSet study with the following
- information.
-
- ID
- {{study.id}}
-
- Name
- {{study.name}}
-
- Full Name
- {{study.fname}}
-
- Short Name
- {{study.sname}}
-
- Created On
- {{study.today}}
-
-
-
-
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/create-tissue-success.html b/qc_app/templates/rqtl2/create-tissue-success.html
deleted file mode 100644
index 5f2c5a0..0000000
--- a/qc_app/templates/rqtl2/create-tissue-success.html
+++ /dev/null
@@ -1,106 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_all_messages%}
-
-{%block title%}Upload R/qtl2 Bundle{%endblock%}
-
-{%block contents%}
-Select Tissue
-
-
-
You have successfully added a new tissue, organ or biological material with
- the following details:
-
-
-
- {{flash_all_messages()}}
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/index.html b/qc_app/templates/rqtl2/index.html
deleted file mode 100644
index f3329c2..0000000
--- a/qc_app/templates/rqtl2/index.html
+++ /dev/null
@@ -1,36 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages%}
-
-{%block title%}Data Upload{%endblock%}
-
-{%block contents%}
-R/qtl2 data upload
-
-R/qtl2 Upload
-
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/no-such-job.html b/qc_app/templates/rqtl2/no-such-job.html
deleted file mode 100644
index b17004f..0000000
--- a/qc_app/templates/rqtl2/no-such-job.html
+++ /dev/null
@@ -1,13 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages%}
-
-{%block title%}Job Status{%endblock%}
-
-{%block contents%}
-R/qtl2 job status
-
-R/qtl2 Upload: No Such Job
-
-No job with ID {{jobid}} was found.
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/rqtl2-job-error.html b/qc_app/templates/rqtl2/rqtl2-job-error.html
deleted file mode 100644
index 9817518..0000000
--- a/qc_app/templates/rqtl2/rqtl2-job-error.html
+++ /dev/null
@@ -1,39 +0,0 @@
-{%extends "base.html"%}
-{%from "cli-output.html" import cli_output%}
-
-{%block title%}Job Status{%endblock%}
-
-{%block contents%}
-R/qtl2 job status
-
-R/qtl2 Upload: Job Status
-
-
-
The processing of the R/qtl2 bundle you uploaded has failed. We have
- provided some information below to help you figure out what the problem
- could be.
-
If you find that you cannot figure out what the problem is on your own,
- please contact the team running the system for assistance, providing the
- following details:
-
- R/qtl2 bundle you uploaded
- This URL: {{request_url()}}
- (maybe) a screenshot of this page
-
-
-
-
-stdout
-{{cli_output(job, "stdout")}}
-
-stderr
-{{cli_output(job, "stderr")}}
-
-Log
-
- {%for msg in messages%}
- {{msg}}
- {%endfor%}
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/rqtl2-job-results.html b/qc_app/templates/rqtl2/rqtl2-job-results.html
deleted file mode 100644
index 4ecd415..0000000
--- a/qc_app/templates/rqtl2/rqtl2-job-results.html
+++ /dev/null
@@ -1,24 +0,0 @@
-{%extends "base.html"%}
-{%from "cli-output.html" import cli_output%}
-
-{%block title%}Job Status{%endblock%}
-
-{%block contents%}
-R/qtl2 job status
-
-R/qtl2 Upload: Job Status
-
-
-
The processing of the R/qtl2 bundle you uploaded has completed
- successfully.
-
You should now be able to use GeneNetwork to run analyses on your data.
-
-
-Log
-
- {%for msg in messages%}
- {{msg}}
- {%endfor%}
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/rqtl2-job-status.html b/qc_app/templates/rqtl2/rqtl2-job-status.html
deleted file mode 100644
index e896f88..0000000
--- a/qc_app/templates/rqtl2/rqtl2-job-status.html
+++ /dev/null
@@ -1,20 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages%}
-
-{%block title%}Job Status{%endblock%}
-
-{%block extrameta%}
-
-{%endblock%}
-
-{%block contents%}
-R/qtl2 job status
-
-R/qtl2 Upload: Job Status
-
-Log
-
-
{{"\n".join(messages)}}
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/rqtl2-qc-job-error.html b/qc_app/templates/rqtl2/rqtl2-qc-job-error.html
deleted file mode 100644
index 90e8887..0000000
--- a/qc_app/templates/rqtl2/rqtl2-qc-job-error.html
+++ /dev/null
@@ -1,120 +0,0 @@
-{%extends "base.html"%}
-{%from "cli-output.html" import cli_output%}
-
-{%block title%}R/qtl2 bundle: QC Job Error{%endblock%}
-
-{%macro errors_table(tableid, errors)%}
-
- {{caption}}
-
-
- Line
- Column
- Value
- Message
-
-
-
- {%for error in errors%}
-
- {{error.line}}
- {{error.column}}
- {{error.value}}
- {{error.message}}
-
- {%else%}
-
- No errors to display here.
-
- {%endfor%}
-
-
-{%endmacro%}
-
-{%block contents%}
-R/qtl2 bundle: QC job Error
-
-
-
The R/qtl2 bundle has failed some Quality Control checks.
-
We list below some of the errors that need to be fixed before the data can
- be uploaded onto GeneNetwork.
-
-
-{%if errorsgeneric | length > 0%}
-Generic Errors ({{errorsgeneric | length}})
-
- We found the following generic errors in your R/qtl2 bundle:
-
-
-Missing Files
-
-
These files are listed in the bundle's control file, but do not actually
- exist in the bundle
-
-
-
-
- Control File Key
- Bundle File Name
- Message
-
-
-
- {%for error in (errorsgeneric | selectattr("type", "equalto", "MissingFile"))%}
-
- {{error.controlfilekey}}
- {{error.filename}}
- {{error.message}}
-
- {%endfor%}
-
-
-
-Other Generic Errors
-{{errors_table("tbl-errors-generic", errorsgeneric| selectattr("type", "ne", "MissingFile"))}}
-{%endif%}
-
-{%if errorsgeno | length > 0%}
-Geno Errors ({{errorsgeno | length}})
-
- We found the following errors in the 'geno' file in your R/qtl2 bundle:
-
-{{errors_table("tbl-errors-geno", errorsgeno[0:50])}}
-{%endif%}
-
-{%if errorspheno | length > 0%}
-Pheno Errors ({{errorspheno | length}})
-
- We found the following errors in the 'pheno' file in your R/qtl2 bundle:
-
-{{errors_table("tbl-errors-pheno", errorspheno[0:50])}}
-{%endif%}
-
-{%if errorsphenose | length > 0%}
-Phenose Errors ({{errorsphenose | length}})
-
- We found the following errors in the 'phenose' file in your R/qtl2 bundle:
-
-{{errors_table("tbl-errors-phenose", errorsphenose[0:50])}}
-{%endif%}
-
-{%if errorsphenocovar | length > 0%}
-Phenocovar Errors ({{errorsphenocovar | length}})
-
- We found the following errors in the 'phenocovar' file in your R/qtl2 bundle:
-
-{{errorsphenocovar}}
-{%endif%}
-
-stdout
-{{cli_output(job, "stdout")}}
-
-stderr
-{{cli_output(job, "stderr")}}
-
-Log
-
-
{{"\n".join(messages)}}
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/rqtl2-qc-job-results.html b/qc_app/templates/rqtl2/rqtl2-qc-job-results.html
deleted file mode 100644
index 59bc8cd..0000000
--- a/qc_app/templates/rqtl2/rqtl2-qc-job-results.html
+++ /dev/null
@@ -1,66 +0,0 @@
-{%extends "base.html"%}
-{%from "cli-output.html" import cli_output%}
-
-{%block title%}R/qtl2 bundle: QC job results{%endblock%}
-
-{%block contents%}
-R/qtl2 bundle: QC job results
-
-
-
The R/qtl2 bundle you uploaded has passed all automated quality-control
- checks successfully.
-
You may now continue to load the data into GeneNetwork for the bundle, with
- the following details:
-
-
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/rqtl2-qc-job-status.html b/qc_app/templates/rqtl2/rqtl2-qc-job-status.html
deleted file mode 100644
index f4a6266..0000000
--- a/qc_app/templates/rqtl2/rqtl2-qc-job-status.html
+++ /dev/null
@@ -1,41 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages%}
-
-{%block title%}Job Status{%endblock%}
-
-{%block extrameta%}
-
-{%endblock%}
-
-{%block contents%}
-R/qtl2 bundle: QC job status
-
-{%if geno_percent%}
-
-
Checking 'geno' file:
-
- {{geno_percent}}%
- {{geno_percent}}%
-{%endif%}
-
-{%if pheno_percent%}
-
-
Checking 'pheno' file:
-
- {{pheno_percent}}%
- {{pheno_percent}}%
-{%endif%}
-
-{%if phenose_percent%}
-
-
Checking 'phenose' file:
-
- {{phenose_percent}}%
- {{phenose_percent}}%
-{%endif%}
-
-Log
-
-
{{"\n".join(messages)}}
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/rqtl2-qc-job-success.html b/qc_app/templates/rqtl2/rqtl2-qc-job-success.html
deleted file mode 100644
index 2861a04..0000000
--- a/qc_app/templates/rqtl2/rqtl2-qc-job-success.html
+++ /dev/null
@@ -1,37 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_all_messages%}
-
-{%block title%}R/qtl2 Bundle: Quality Control Successful{%endblock%}
-
-{%block contents%}
-R/qtl2 Bundle: Quality Control Successful
-
-
-
The R/qtl2 bundle you uploaded has passed all quality control
- checks successfully, and is now ready for uploading into the database.
-
Click "Continue" below to proceed.
-
-
-
-
-
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/select-geno-dataset.html b/qc_app/templates/rqtl2/select-geno-dataset.html
deleted file mode 100644
index 873f9c3..0000000
--- a/qc_app/templates/rqtl2/select-geno-dataset.html
+++ /dev/null
@@ -1,144 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages%}
-
-{%block title%}Upload R/qtl2 Bundle{%endblock%}
-
-{%block contents%}
-Select Genotypes Dataset
-
-
-
Your R/qtl2 files bundle contains a "geno" specification. You will
- therefore need to select from one of the existing Genotype datasets or
- create a new one.
-
This is the dataset where your data will be organised under.
-
-
-
-
-
-
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/select-population.html b/qc_app/templates/rqtl2/select-population.html
deleted file mode 100644
index 37731f0..0000000
--- a/qc_app/templates/rqtl2/select-population.html
+++ /dev/null
@@ -1,136 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages%}
-
-{%block title%}Select Grouping/Population{%endblock%}
-
-{%block contents%}
-Select grouping/population
-
-
-
The data is organised in a hierarchical form, beginning with
- species at the very top. Under species the data is
- organised by population , sometimes referred to as grouping .
- (In some really old documents/systems, you might see this referred to as
- InbredSet .)
-
In this section, you get to define what population your data is to be
- organised by.
-
-
-
-
-OR
-
-
-
-{%endblock%}
-
-
-{%block javascript%}
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/select-probeset-dataset.html b/qc_app/templates/rqtl2/select-probeset-dataset.html
deleted file mode 100644
index 26f52ed..0000000
--- a/qc_app/templates/rqtl2/select-probeset-dataset.html
+++ /dev/null
@@ -1,191 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages%}
-
-{%block title%}Upload R/qtl2 Bundle{%endblock%}
-
-{%block contents%}
-Phenotype(ProbeSet) Dataset
-
-
-
The R/qtl2 bundle you uploaded contains (a) "pheno "
- file(s). This data needs to be organised under a dataset.
-
This page gives you the ability to do that.
-
-
-{%if datasets | length > 0%}
-
-
- Select from existing ProbeSet datasets
- {{flash_messages("error-rqtl2")}}
-
-
-
-
-
-
-
-
-
- Dataset
-
- Select a dataset
- {%for dataset in datasets%}
-
- {{dataset.Name}}
- {%if dataset.FullName%}
- -- ({{dataset.FullName}})
- {%endif%}
-
- {%endfor%}
-
-
-
- Select from existing ProbeSet datasets.
-
-
- select dataset
-
-
-
-
-{%endif%}
-
-
-
Create an entirely new ProbeSet dataset for your data.
-
-
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/select-probeset-study-id.html b/qc_app/templates/rqtl2/select-probeset-study-id.html
deleted file mode 100644
index b9bf52e..0000000
--- a/qc_app/templates/rqtl2/select-probeset-study-id.html
+++ /dev/null
@@ -1,143 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages %}
-
-{%block title%}Upload R/qtl2 Bundle{%endblock%}
-
-{%block contents%}
-Phenotype(ProbeSet) Study
-
-
-
The R/qtl2 bundle you uploaded contains (a) "pheno "
- file(s). This data needs to be organised under a study.
-
In this page, you can either select from a existing dataset:
-
-
- Select from existing ProbeSet studies
- {{flash_messages("error-rqtl2-select-probeset-study")}}
-
-
-
-
-
-
-
-
- Study
-
- Select a study
- {%for study in studies%}
-
- {{study.Name}}
- {%if study.FullName%}
- -- ({{study.FullName}})
- {%endif%}
-
- {%endfor%}
-
-
- Select from existing ProbeSet studies.
-
-
-
- select study
-
-
-
-
-
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/select-tissue.html b/qc_app/templates/rqtl2/select-tissue.html
deleted file mode 100644
index 34e1758..0000000
--- a/qc_app/templates/rqtl2/select-tissue.html
+++ /dev/null
@@ -1,115 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages%}
-
-{%block title%}Upload R/qtl2 Bundle{%endblock%}
-
-{%block contents%}
-Tissue
-
-
-
The data you are uploading concerns a tissue, cell, organ, or other
- biological material used in an experiment.
-
Select the appropriate biological material below
-
-
-{%if tissues | length > 0%}
-
-
- Select from existing ProbeSet datasets
- {{flash_messages("error-select-tissue")}}
-
-
-
-
-
-
-
- Tissue
-
- Select a tissue
- {%for tissue in tissues%}
-
- {{tissue.Name}}
- {%if tissue.Short_Name%}
- -- ({{tissue.Short_Name}})
- {%endif%}
-
- {%endfor%}
-
-
-
- Select from existing biological material.
-
-
- use selected
-
-
-
-
-{%endif%}
-
-
-
If you cannot find the biological material in the drop-down above, add it
- to the system below.
-
-
- Add new tissue, organ or biological material
- {{flash_messages("error-create-tissue")}}
-
-
-
-
-
-
-
- name
-
-
-
- A name to identify the tissue, organ or biological material.
-
-
-
-
- short name
-
-
-
- Provide a short name for the tissue, organ or biological material used in
- the experiment.
-
-
-
- add new material
-
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/summary-info.html b/qc_app/templates/rqtl2/summary-info.html
deleted file mode 100644
index 1be87fa..0000000
--- a/qc_app/templates/rqtl2/summary-info.html
+++ /dev/null
@@ -1,65 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_messages%}
-
-{%block title%}Upload R/qtl2 Bundle{%endblock%}
-
-{%block contents%}
-Summary
-
-
-
This is the information you have provided to accompany the R/qtl2 bundle
- you have uploaded. Please verify the information is correct before
- proceeding.
-
-
-
-
- Species
- {{species.SpeciesName}} ({{species.FullName}})
-
- Population
- {{population.InbredSetName}}
-
- {%if geno_dataset%}
- Genotype Dataset
- {{geno_dataset.Name}} ({{geno_dataset.FullName}})
- {%endif%}
-
- {%if tissue%}
- Tissue
- {{tissue.TissueName}} ({{tissue.Name}}, {{tissue.Short_Name}})
- {%endif%}
-
- {%if probe_study%}
- ProbeSet Study
- {{probe_study.Name}} ({{probe_study.FullName}})
- {%endif%}
-
- {%if probe_dataset%}
- ProbeSet Dataset
- {{probe_dataset.Name2}} ({{probe_dataset.FullName}})
- {%endif%}
-
-
-
-
-
- Create ProbeSet dataset
-
-
-
-
-
-
-
-
- continue
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/upload-rqtl2-bundle-step-01.html b/qc_app/templates/rqtl2/upload-rqtl2-bundle-step-01.html
deleted file mode 100644
index 07c240f..0000000
--- a/qc_app/templates/rqtl2/upload-rqtl2-bundle-step-01.html
+++ /dev/null
@@ -1,276 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_all_messages%}
-{%from "upload_progress_indicator.html" import upload_progress_indicator%}
-
-{%block title%}Upload R/qtl2 Bundle{%endblock%}
-
-{%block contents%}
-{%macro rqtl2_file_help()%}
-
-
- Provide a valid R/qtl2 zip file here. In particular, ensure your zip bundle
- contains exactly one control file and the corresponding files mentioned in
- the control file.
-
-
- The control file can be either a YAML or JSON file. ALL other data
- files in the zip bundle should be CSV files.
-
- See the
-
- R/qtl2 file format specifications
-
- for more details.
-
-
-{%endmacro%}
-{{upload_progress_indicator()}}
-
-
-
-
-Upload R/qtl2 Bundle
-
-
-
- Browse
-
-
- You can drag and drop your file here, or click the browse button.
- Click on the file to remove it.
-
- {{rqtl2_file_help()}}
-
-
- start upload
- cancel upload
-
-
-
-
-
-
-
-
- {{flash_all_messages()}}
-
-
- file upload
- R/qtl2 bundle
-
- {{rqtl2_file_help()}}
-
-
- upload R/qtl2 bundle
-
-
-{%endblock%}
-
-{%block javascript%}
-
-
-
-{%endblock%}
diff --git a/qc_app/templates/rqtl2/upload-rqtl2-bundle-step-02.html b/qc_app/templates/rqtl2/upload-rqtl2-bundle-step-02.html
deleted file mode 100644
index 93b1dc9..0000000
--- a/qc_app/templates/rqtl2/upload-rqtl2-bundle-step-02.html
+++ /dev/null
@@ -1,33 +0,0 @@
-{%extends "base.html"%}
-{%from "flash_messages.html" import flash_all_messages%}
-
-{%block title%}Upload R/qtl2 Bundle{%endblock%}
-
-{%block contents%}
-Upload R/qtl2 Bundle
-
-
-
You have successfully uploaded the zipped bundle of R/qtl2 files.
-
The next step is to select the various extra information we need to figure
- out what to do with the data. You will select/create the relevant studies
- and/or datasets to organise the data in the steps that follow.
-
Click "Continue" below to proceed.
-
-
- {{flash_all_messages()}}
-
-
-
-
- continue
-
-
-
-{%endblock%}
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